[med-svn] [snp-sites] 01/01: Added autoreconf to the build dependencies in debian/control. This allows debian package instalation directly form upstream git project
Jorge Soares
jssoares-guest at moszumanska.debian.org
Tue Dec 10 09:54:03 UTC 2013
This is an automated email from the git hooks/post-receive script.
jssoares-guest pushed a commit to branch master
in repository snp-sites.
commit e9f666ce1a3401cb89f90ff0753ce8e6a2bd6512
Author: jssoares-guest <j.s.soares at gmail.com>
Date: Tue Dec 10 09:53:52 2013 +0000
Added autoreconf to the build dependencies in debian/control. This allows debian package instalation directly form upstream git project
---
AUTHORS | 1 +
INSTALL | 15 +
LICENSE | 641 +++++++++++++++++++++
Makefile.am | 1 +
README.md | 40 ++
VERSION | 1 +
configure.ac | 14 +
debian/changelog | 5 +
debian/compat | 1 +
debian/control | 41 ++
debian/copyright | 48 ++
debian/docs | 1 +
debian/libsnp-sites1-dev.install | 8 +
debian/libsnp-sites1.install | 1 +
debian/patches/series | 1 +
debian/rules | 13 +
debian/snp-sites.install | 1 +
debian/source/format | 1 +
src/Makefile.am | 22 +
src/alignment-file.c | 280 +++++++++
src/alignment-file.h | 41 ++
src/fasta-of-snp-sites.c | 49 ++
src/fasta-of-snp-sites.h | 26 +
src/kseq.h | 235 ++++++++
src/main.c | 88 +++
src/parse-phylip.c | 51 ++
src/parse-phylip.h | 33 ++
src/phylib-of-snp-sites.c | 55 ++
src/phylib-of-snp-sites.h | 27 +
src/snp-sites.c | 235 ++++++++
src/snp-sites.h | 33 ++
src/string-cat.c | 42 ++
src/string-cat.h | 28 +
src/vcf.c | 178 ++++++
src/vcf.h | 33 ++
tests/check-snp-sites.c | 260 +++++++++
tests/check-snp-sites.h | 27 +
.../alignment_file_multiple_lines_per_sequence.aln | 226 ++++++++
.../data/alignment_file_one_line_per_sequence.aln | 218 +++++++
.../alignment_file_one_line_per_sequence.aln.gz | Bin 0 -> 3447 bytes
...alignment_file_one_line_per_sequence.aln.phylip | 110 ++++
...nt_file_one_line_per_sequence.aln.snp_sites.aln | 218 +++++++
.../alignment_file_one_line_per_sequence.aln.vcf | 8 +
tests/data/alignment_file_with_n.aln | 218 +++++++
tests/data/alignment_file_with_n.aln.phylip | 110 ++++
tests/data/alignment_file_with_n.aln.snp_sites.aln | 218 +++++++
tests/data/alignment_file_with_n.aln.vcf | 8 +
tests/data/small_alignment.aln | 6 +
tests/data/uneven_alignment.aln | 6 +
tests/helper-methods.c | 67 +++
tests/helper-methods.h | 25 +
tests/run-all-tests.c | 37 ++
52 files changed, 4052 insertions(+)
diff --git a/AUTHORS b/AUTHORS
new file mode 100644
index 0000000..0f0ec82
--- /dev/null
+++ b/AUTHORS
@@ -0,0 +1 @@
+Andrew J. Page <ap13 at sanger.ac.uk>
\ No newline at end of file
diff --git a/INSTALL b/INSTALL
new file mode 100644
index 0000000..c2e2bd2
--- /dev/null
+++ b/INSTALL
@@ -0,0 +1,15 @@
+== Installing from a git checkout ==
+$ autoreconf -i
+$ ./configure
+$ su -
+$ make
+$ make install
+
+== Installing from a released source tarball ==
+
+$ tar xzvf snp_sites-1.0.tar.gz
+$ cd snp_sites-1.0
+$ ./configure
+$ make
+$ su -
+$ make install
\ No newline at end of file
diff --git a/LICENSE b/LICENSE
new file mode 100644
index 0000000..c433dce
--- /dev/null
+++ b/LICENSE
@@ -0,0 +1,641 @@
+ GNU GENERAL PUBLIC LICENSE
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+the work, and under which the third party grants, to any of the
+parties who would receive the covered work from you, a discriminatory
+patent license (a) in connection with copies of the covered work
+conveyed by you (or copies made from those copies), or (b) primarily
+for and in connection with specific products or compilations that
+contain the covered work, unless you entered into that arrangement,
+or that patent license was granted, prior to 28 March 2007.
+
+ Nothing in this License shall be construed as excluding or limiting
+any implied license or other defenses to infringement that may
+otherwise be available to you under applicable patent law.
+
+ 12. No Surrender of Others' Freedom.
+
+ If conditions are imposed on you (whether by court order, agreement or
+otherwise) that contradict the conditions of this License, they do not
+excuse you from the conditions of this License. If you cannot convey a
+covered work so as to satisfy simultaneously your obligations under this
+License and any other pertinent obligations, then as a consequence you may
+not convey it at all. For example, if you agree to terms that obligate you
+to collect a royalty for further conveying from those to whom you convey
+the Program, the only way you could satisfy both those terms and this
+License would be to refrain entirely from conveying the Program.
+
+ 13. Use with the GNU Affero General Public License.
+
+ Notwithstanding any other provision of this License, you have
+permission to link or combine any covered work with a work licensed
+under version 3 of the GNU Affero General Public License into a single
+combined work, and to convey the resulting work. The terms of this
+License will continue to apply to the part which is the covered work,
+but the special requirements of the GNU Affero General Public License,
+section 13, concerning interaction through a network will apply to the
+combination as such.
+
+ 14. Revised Versions of this License.
+
+ The Free Software Foundation may publish revised and/or new versions of
+the GNU General Public License from time to time. Such new versions will
+be similar in spirit to the present version, but may differ in detail to
+address new problems or concerns.
+
+ Each version is given a distinguishing version number. If the
+Program specifies that a certain numbered version of the GNU General
+Public License "or any later version" applies to it, you have the
+option of following the terms and conditions either of that numbered
+version or of any later version published by the Free Software
+Foundation. If the Program does not specify a version number of the
+GNU General Public License, you may choose any version ever published
+by the Free Software Foundation.
+
+ If the Program specifies that a proxy can decide which future
+versions of the GNU General Public License can be used, that proxy's
+public statement of acceptance of a version permanently authorizes you
+to choose that version for the Program.
+
+ Later license versions may give you additional or different
+permissions. However, no additional obligations are imposed on any
+author or copyright holder as a result of your choosing to follow a
+later version.
+
+ 15. Disclaimer of Warranty.
+
+ THERE IS NO WARRANTY FOR THE PROGRAM, TO THE EXTENT PERMITTED BY
+APPLICABLE LAW. EXCEPT WHEN OTHERWISE STATED IN WRITING THE COPYRIGHT
+HOLDERS AND/OR OTHER PARTIES PROVIDE THE PROGRAM "AS IS" WITHOUT WARRANTY
+OF ANY KIND, EITHER EXPRESSED OR IMPLIED, INCLUDING, BUT NOT LIMITED TO,
+THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
+PURPOSE. THE ENTIRE RISK AS TO THE QUALITY AND PERFORMANCE OF THE PROGRAM
+IS WITH YOU. SHOULD THE PROGRAM PROVE DEFECTIVE, YOU ASSUME THE COST OF
+ALL NECESSARY SERVICING, REPAIR OR CORRECTION.
+
+ 16. Limitation of Liability.
+
+ IN NO EVENT UNLESS REQUIRED BY APPLICABLE LAW OR AGREED TO IN WRITING
+WILL ANY COPYRIGHT HOLDER, OR ANY OTHER PARTY WHO MODIFIES AND/OR CONVEYS
+THE PROGRAM AS PERMITTED ABOVE, BE LIABLE TO YOU FOR DAMAGES, INCLUDING ANY
+GENERAL, SPECIAL, INCIDENTAL OR CONSEQUENTIAL DAMAGES ARISING OUT OF THE
+USE OR INABILITY TO USE THE PROGRAM (INCLUDING BUT NOT LIMITED TO LOSS OF
+DATA OR DATA BEING RENDERED INACCURATE OR LOSSES SUSTAINED BY YOU OR THIRD
+PARTIES OR A FAILURE OF THE PROGRAM TO OPERATE WITH ANY OTHER PROGRAMS),
+EVEN IF SUCH HOLDER OR OTHER PARTY HAS BEEN ADVISED OF THE POSSIBILITY OF
+SUCH DAMAGES.
+
+ 17. Interpretation of Sections 15 and 16.
+
+ If the disclaimer of warranty and limitation of liability provided
+above cannot be given local legal effect according to their terms,
+reviewing courts shall apply local law that most closely approximates
+an absolute waiver of all civil liability in connection with the
+Program, unless a warranty or assumption of liability accompanies a
+copy of the Program in return for a fee.
+
+---------------------------------------------------------------------------
+
+The MIT License (MIT)
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in
+all copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
+THE SOFTWARE.
diff --git a/Makefile.am b/Makefile.am
new file mode 100644
index 0000000..1bfdcf4
--- /dev/null
+++ b/Makefile.am
@@ -0,0 +1 @@
+SUBDIRS=src
diff --git a/README.md b/README.md
new file mode 100644
index 0000000..8a1fc1c
--- /dev/null
+++ b/README.md
@@ -0,0 +1,40 @@
+[](https://travis-ci.org/sanger-pathogens/snp_sites)
+SNP Sites
+=====
+This program finds snp sites from a multi fasta alignment file.
+
+
+Usage: snp_sites [-mvph] [-o output_filename] <file>
+This program finds snp sites from a multi fasta alignment file.
+ -m output a multi fasta alignment file (default)
+ -v output a VCF file
+ -p output a phylip file
+ -o specify an output filename
+ -h this help message
+ <file> input alignment file which can optionally be gzipped
+
+
+This application takes in a multi fasta alignment, finds all the SNP sites, then outputs the SNP sites in the following formats:
+
+a multi fasta alignment,
+VCF,
+relaxed phylip format.
+
+Example usage:
+
+snp_sites my_alignment.aln
+
+snp_sites my_gzipped_alignment.aln.gz
+
+
+Multi Fasta Alignment
+=====
+Similar to the input file but just containing the SNP sites.
+
+VCF
+=====
+This contains the position of each SNP in the reference sequence, and the occurrence in each other sample. Can be loaded into Artemis for visualisation.
+
+Relaxed Phylip format
+=====
+All the SNP sites in a format for RAxML and other tree building applications.
diff --git a/VERSION b/VERSION
new file mode 100644
index 0000000..d00491f
--- /dev/null
+++ b/VERSION
@@ -0,0 +1 @@
+1
diff --git a/configure.ac b/configure.ac
new file mode 100644
index 0000000..262d75b
--- /dev/null
+++ b/configure.ac
@@ -0,0 +1,14 @@
+AC_INIT([snp-sites], [1])
+AM_INIT_AUTOMAKE([foreign])
+AC_CONFIG_SRCDIR([configure.ac])
+AC_CONFIG_HEADERS([config.h])
+AC_CONFIG_MACRO_DIR([m4])
+
+AC_PROG_LIBTOOL
+AC_PROG_CC
+AC_PROG_CXX
+
+AC_CONFIG_FILES([Makefile src/Makefile])
+AC_OUTPUT
+
+AC_CHECK_HEADERS([zlib.h math.h])
diff --git a/debian/changelog b/debian/changelog
new file mode 100644
index 0000000..26d460f
--- /dev/null
+++ b/debian/changelog
@@ -0,0 +1,5 @@
+snp-sites (1-1) unstable; urgency=low
+
+ * Initial release (Closes: #nnnn) <nnnn is the bug number of your ITP>
+
+ -- Jorge Soares <js21 at sanger.ac.uk> Tue, 03 Dec 2013 11:52:54 +0000
diff --git a/debian/compat b/debian/compat
new file mode 100644
index 0000000..ec63514
--- /dev/null
+++ b/debian/compat
@@ -0,0 +1 @@
+9
diff --git a/debian/control b/debian/control
new file mode 100644
index 0000000..9b6292e
--- /dev/null
+++ b/debian/control
@@ -0,0 +1,41 @@
+Source: snp-sites
+Section: science
+Priority: optional
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Jorge Soares <j.s.soares at gmail.com>
+Build-Depends: debhelper (>= 8.0.0),
+ autotools-dev,
+ zlib1g-dev,
+ check,
+ dh-autoreconf
+Standards-Version: 3.9.3
+Homepage: https://github.com/sanger-pathogens/snp_sites
+Vcs-Git: git://anonscm.debian.org/debian-med/snp-sites.git
+Vcs-Browser: http://anonscm.debian.org/gitweb/?p=debian-med/snp-sites.git
+
+Package: snp-sites
+Architecture: any
+Depends: ${shlibs:Depends},
+ ${misc:Depends},
+ zlib1g,
+ libsnp-sites1
+Description: snp-sites binary code
+ This program finds snp sites from a multi fasta alignment file
+
+Package: libsnp-sites1
+Architecture: any
+Section: libs
+Depends: ${shlibs:Depends},
+ ${misc:Depends},
+ zlib1g
+Description: snp-sites library code
+ This program finds snp sites from a multi fasta alignment file
+
+Package: libsnp-sites1-dev
+Architecture: any
+Section: libdevel
+Depends: ${shlibs:Depends},
+ ${misc:Depends},
+ libsnp-sites1 (= ${binary:Version})
+Description: snp-sites development library code
+ This program finds snp sites from a multi fasta alignment file
\ No newline at end of file
diff --git a/debian/copyright b/debian/copyright
new file mode 100644
index 0000000..cf32aa5
--- /dev/null
+++ b/debian/copyright
@@ -0,0 +1,48 @@
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: snp-sites
+Source: https://github.com/sanger-pathogens/snp_sites
+
+Files: *
+Copyright:
+ 2012-2013 Andrew Page <ap13 at sanger.ac.uk>
+ 2013-2013 Jorge Soares <js21 at sanger.ac.uk>
+License: GPL-2+
+ This package is free software; you can redistribute it and/or modify
+ it under the terms of the GNU General Public License as published by
+ the Free Software Foundation; either version 3 of the License, or
+ (at your option) any later version.
+ .
+ This package is distributed in the hope that it will be useful,
+ but WITHOUT ANY WARRANTY; without even the implied warranty of
+ MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ GNU General Public License for more details.
+ .
+ You should have received a copy of the GNU General Public License
+ along with this program. If not, see <http://www.gnu.org/licenses/>
+ .
+ On Debian systems, the complete text of the GNU General
+ Public License version 3 can be found in "/usr/share/common-licenses/GPL-3".
+
+Files: src/kseq.h
+Copyright:
+ 2008-2011 Attractive Chaos <attractor at live.co.uk>
+License: MIT
+ Permission is hereby granted, free of charge, to any person obtaining
+ a copy of this software and associated documentation files (the
+ "Software"), to deal in the Software without restriction, including
+ without limitation the rights to use, copy, modify, merge, publish,
+ distribute, sublicense, and/or sell copies of the Software, and to
+ permit persons to whom the Software is furnished to do so, subject to
+ the following conditions:
+ .
+ The above copyright notice and this permission notice shall be
+ included in all copies or substantial portions of the Software.
+ .
+ THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
+ EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
+ MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
+ NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS
+ BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN
+ ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN
+ CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+ SOFTWARE.
diff --git a/debian/docs b/debian/docs
new file mode 100644
index 0000000..b43bf86
--- /dev/null
+++ b/debian/docs
@@ -0,0 +1 @@
+README.md
diff --git a/debian/libsnp-sites1-dev.install b/debian/libsnp-sites1-dev.install
new file mode 100644
index 0000000..1fb5b11
--- /dev/null
+++ b/debian/libsnp-sites1-dev.install
@@ -0,0 +1,8 @@
+usr/share/parse-phylip.h usr/include/snp-sites/parse-phylip.h
+usr/share/vcf.h usr/include/snp-sites/vcf.h
+usr/share/kseq.h usr/include/snp-sites/kseq.h
+usr/share/fasta-of-snp-sites.h usr/include/snp-sites/fasta-of-snp-sites.h
+usr/share/phylib-of-snp-sites.h usr/include/snp-sites/phylib-of-snp-sites.h
+usr/share/snp-sites.h usr/include/snp-sites/snp-sites.h
+usr/share/alignment-file.h usr/include/snp-sites/alignment-file.h
+usr/share/string-cat.h usr/include/snp-sites/string-cat.h
\ No newline at end of file
diff --git a/debian/libsnp-sites1.install b/debian/libsnp-sites1.install
new file mode 100644
index 0000000..de3d642
--- /dev/null
+++ b/debian/libsnp-sites1.install
@@ -0,0 +1 @@
+usr/lib/
\ No newline at end of file
diff --git a/debian/patches/series b/debian/patches/series
new file mode 100644
index 0000000..8b13789
--- /dev/null
+++ b/debian/patches/series
@@ -0,0 +1 @@
+
diff --git a/debian/rules b/debian/rules
new file mode 100755
index 0000000..85ce4e2
--- /dev/null
+++ b/debian/rules
@@ -0,0 +1,13 @@
+#!/usr/bin/make -f
+# -*- makefile -*-
+# Sample debian/rules that uses debhelper.
+# This file was originally written by Joey Hess and Craig Small.
+# As a special exception, when this file is copied by dh-make into a
+# dh-make output file, you may use that output file without restriction.
+# This special exception was added by Craig Small in version 0.37 of dh-make.
+
+# Uncomment this to turn on verbose mode.
+#export DH_VERBOSE=1
+
+%:
+ dh $@ --with autoreconf
diff --git a/debian/snp-sites.install b/debian/snp-sites.install
new file mode 100644
index 0000000..44636c1
--- /dev/null
+++ b/debian/snp-sites.install
@@ -0,0 +1 @@
+usr/bin/snp-sites
\ No newline at end of file
diff --git a/debian/source/format b/debian/source/format
new file mode 100644
index 0000000..163aaf8
--- /dev/null
+++ b/debian/source/format
@@ -0,0 +1 @@
+3.0 (quilt)
diff --git a/src/Makefile.am b/src/Makefile.am
new file mode 100644
index 0000000..ddd0e04
--- /dev/null
+++ b/src/Makefile.am
@@ -0,0 +1,22 @@
+# ship these headers in the "make dist" target
+dist_data_DATA = alignment-file.h vcf.h phylib-of-snp-sites.h snp-sites.h fasta-of-snp-sites.h parse-phylip.h string-cat.h kseq.h
+
+# snp_sites is our top level progra
+bin_PROGRAMS = snp-sites
+snp_sites_SOURCES = main.c
+snp_sites_LDADD=-lm libsnp-sites.la -lz -lpthread -lrt
+
+# libsnp_sites.so is our library
+lib_LTLIBRARIES = libsnp-sites.la
+libsnp_sites_la_SOURCES = alignment-file.c vcf.c phylib-of-snp-sites.c snp-sites.c fasta-of-snp-sites.c parse-phylip.c string-cat.c
+libsnp_sites_la_LDFLAGS= -version-info 1:0
+
+# "make check" target
+TESTS = $(check_PROGRAMS)
+check_PROGRAMS = run-all-tests
+run_all_tests_SOURCES = \
+ ../tests/check-snp-sites.c \
+ ../tests/helper-methods.c \
+ ../tests/run-all-tests.c
+run_all_tests_CFLAGS = -I../tests
+run_all_tests_LDADD = -lm -lcheck libsnp-sites.la -lz -lpthread -lrt
\ No newline at end of file
diff --git a/src/alignment-file.c b/src/alignment-file.c
new file mode 100644
index 0000000..c1aab4c
--- /dev/null
+++ b/src/alignment-file.c
@@ -0,0 +1,280 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2013 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+
+#include <stdio.h>
+#include <stdlib.h>
+#include <string.h>
+#include <zlib.h>
+#include <regex.h>
+#include <sys/types.h>
+#include "kseq.h"
+#include "vcf.h"
+#include "alignment-file.h"
+#include "snp-sites.h"
+
+KSEQ_INIT(gzFile, gzread)
+
+// Given a file handle, return the length of the current line
+int line_length(FILE * alignment_file_pointer)
+{
+ char szBuffer[MAX_READ_BUFFER] = {0};
+ char *pcRes = NULL;
+ int length_of_line = 0;
+ int total_length_of_line = 0;
+
+ while((pcRes = fgets(szBuffer, sizeof(szBuffer), alignment_file_pointer)) != NULL){
+ length_of_line = strlen(szBuffer) - 1;
+ total_length_of_line = total_length_of_line + length_of_line;
+ if((szBuffer)[length_of_line] == '\n'){
+ break;
+ }
+ }
+ return total_length_of_line;
+}
+
+void advance_to_sequence(FILE * alignment_file_pointer)
+{
+ // Skip first line since its a comment, ToDo make this better by doing a regex on the line
+ line_length(alignment_file_pointer);
+}
+
+void advance_to_sequence_name(FILE * alignment_file_pointer)
+{
+ // Skip sequence line, TODO make this work properly
+ line_length(alignment_file_pointer);
+}
+
+
+void get_bases_for_each_snp(char filename[], int snp_locations[], char ** bases_for_snps, int length_of_genome, int number_of_snps)
+{
+ int l;
+ int i = 0;
+ int sequence_number = 0;
+ int length_of_genome_found =0;
+
+ gzFile fp;
+ kseq_t *seq;
+
+ fp = gzopen(filename, "r");
+ seq = kseq_init(fp);
+
+ while ((l = kseq_read(seq)) >= 0)
+ {
+ if(sequence_number == 0)
+ {
+ length_of_genome_found = seq->seq.l;
+ }
+ for(i = 0; i< number_of_snps; i++)
+ {
+ bases_for_snps[i][sequence_number] = toupper(((char *) seq->seq.s)[snp_locations[i]]);
+ }
+
+ if(seq->seq.l != length_of_genome_found)
+ {
+ fprintf(stderr, "Alignment %s contains sequences of unequal length. Expected length is %d but got %d in sequence %s\n\n",filename, length_of_genome_found, seq->seq.l,seq->name.s);
+ fflush(stderr);
+ exit(EXIT_FAILURE);
+ }
+
+ sequence_number++;
+ }
+
+ kseq_destroy(seq);
+ gzclose(fp);
+}
+
+int genome_length(char filename[])
+{
+ int length_of_genome;
+
+ if( access( filename, F_OK ) == -1 ) {
+ printf("Cannot calculate genome_length because file '%s' doesnt exist\n",filename);
+ exit(0);
+ }
+
+ gzFile fp;
+ kseq_t *seq;
+
+ fp = gzopen(filename, "r");
+ seq = kseq_init(fp);
+ kseq_read(seq);
+
+ length_of_genome = seq->seq.l;
+
+ kseq_destroy(seq);
+ gzclose(fp);
+ return length_of_genome;
+}
+
+
+int number_of_sequences_in_file(char filename[])
+{
+ int number_of_sequences = 0;
+ int l;
+
+ gzFile fp;
+ kseq_t *seq;
+
+ fp = gzopen(filename, "r");
+ seq = kseq_init(fp);
+
+ while ((l = kseq_read(seq)) >= 0) {
+ number_of_sequences++;
+ }
+ kseq_destroy(seq);
+ gzclose(fp);
+ return number_of_sequences;
+}
+
+
+int build_reference_sequence(char reference_sequence[], char filename[])
+{
+ int i;
+
+ int length_of_genome;
+
+ gzFile fp;
+ kseq_t *seq;
+
+ fp = gzopen(filename, "r");
+ seq = kseq_init(fp);
+ kseq_read(seq);
+
+ for(i = 0; i < seq->seq.l; i++)
+ {
+ reference_sequence[i] = toupper(seq->seq.s[i]);
+ }
+
+ kseq_destroy(seq);
+ gzclose(fp);
+ return 1;
+}
+
+int detect_snps(char reference_sequence[], char filename[], int length_of_genome)
+{
+ int i;
+ int number_of_snps = 0;
+ int l;
+
+ gzFile fp;
+ kseq_t *seq;
+
+ fp = gzopen(filename, "r");
+ seq = kseq_init(fp);
+ // First sequence is the reference sequence so skip it
+ kseq_read(seq);
+
+ while ((l = kseq_read(seq)) >= 0) {
+ for(i = 0; i < length_of_genome; i++)
+ {
+ // If there is an indel in the reference sequence, replace with the first proper base you find
+ if((reference_sequence[i] == '-' && seq->seq.s[i] != '-' ) || (toupper(reference_sequence[i]) == 'N' && seq->seq.s[i] != 'N' ))
+ {
+ reference_sequence[i] = toupper(seq->seq.s[i]);
+ }
+
+ if(reference_sequence[i] != '*' && seq->seq.s[i] != '-' && toupper(seq->seq.s[i]) != 'N' && reference_sequence[i] != toupper(seq->seq.s[i]))
+ {
+ reference_sequence[i] = '*';
+ number_of_snps++;
+ }
+ }
+
+ }
+ kseq_destroy(seq);
+ gzclose(fp);
+
+ return number_of_snps;
+}
+
+
+char * read_line(char sequence[], FILE * pFilePtr)
+{
+ char *pcRes = NULL;
+ long lineLength = 0;
+ char current_line_buffer[MAX_READ_BUFFER] = {0};
+
+
+ while((pcRes = fgets(current_line_buffer, sizeof(current_line_buffer), pFilePtr)) != NULL){
+ if(size_of_string(sequence) > 0)
+ {
+ sequence = realloc(sequence, sizeof(char)*(size_of_string(sequence) + size_of_string(current_line_buffer) + 2) );
+ }
+ concat_strings_created_with_malloc(sequence,current_line_buffer);
+ current_line_buffer[0] = '\0';
+ lineLength = size_of_string(sequence);
+ //if end of line character is found then exit from loop
+
+ if((sequence)[lineLength] == '\n' || (sequence)[lineLength] == '\0'){
+ break;
+ }
+ }
+
+
+ return sequence;
+}
+
+
+void get_sample_names_for_header(char filename[], char ** sequence_names, int number_of_samples)
+{
+ int l;
+ int i = 0;
+
+ gzFile fp;
+ kseq_t *seq;
+
+ fp = gzopen(filename, "r");
+ seq = kseq_init(fp);
+
+ while ((l = kseq_read(seq)) >= 0) {
+ memcpy(sequence_names[i], seq->name.s, size_of_string(seq->name.s)+1);
+ i++;
+ }
+ kseq_destroy(seq);
+ gzclose(fp);
+
+}
+
+
+char filter_invalid_characters(char input_char)
+{
+ regex_t regex;
+ int reti;
+ char input_chars[10];
+ input_chars[0] =input_char;
+ input_chars[1] = '\0';
+
+ /* Compile regular expression */
+ reti = regcomp(®ex, "^[[:alnum:]_.]", 0);
+
+ /* Execute regular expression */
+ reti = regexec(®ex, input_chars, 0, NULL, 0);
+ if( !reti ){
+ return input_char;
+ }
+ else if( reti == REG_NOMATCH ){
+ return '\0';
+ }
+ return '\0';
+
+ regfree(®ex);
+}
+
+
diff --git a/src/alignment-file.h b/src/alignment-file.h
new file mode 100644
index 0000000..b2e21d1
--- /dev/null
+++ b/src/alignment-file.h
@@ -0,0 +1,41 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2013 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+#ifndef _ALIGNMENT_FILE_H_
+#define _ALIGNMENT_FILE_H_
+
+#include "kseq.h"
+
+int detect_snps(char reference_sequence[], char filename[], int length_of_genome);
+int line_length(FILE * alignment_file_pointer);
+int build_reference_sequence(char reference_sequence[], char filename[]);
+void advance_to_sequence(FILE * alignment_file_pointer);
+void advance_to_sequence_name(FILE * alignment_file_pointer);
+int genome_length(char filename[]);
+char * read_line(char sequence[], FILE * pFilePtr);
+int number_of_sequences_in_file(char filename[]);
+void get_sample_names_for_header(char filename[], char ** sequence_names, int number_of_samples);
+char filter_invalid_characters(char input_char);
+void get_bases_for_each_snp(char filename[], int snp_locations[], char ** bases_for_snps, int length_of_genome, int number_of_snps);
+
+
+#define MAX_READ_BUFFER 65536
+#define MAX_SAMPLE_NAME_SIZE 1024
+
+#endif
diff --git a/src/fasta-of-snp-sites.c b/src/fasta-of-snp-sites.c
new file mode 100644
index 0000000..155d7e9
--- /dev/null
+++ b/src/fasta-of-snp-sites.c
@@ -0,0 +1,49 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2011 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+
+#include <stdio.h>
+#include <stdlib.h>
+#include <string.h>
+#include <regex.h>
+#include "fasta-of-snp-sites.h"
+
+void create_fasta_of_snp_sites(char filename[], int number_of_snps, char ** bases_for_snps, char ** sequence_names, int number_of_samples)
+{
+ FILE *fasta_file_pointer;
+ int sample_counter;
+ int snp_counter;
+ char * base_filename;
+
+ base_filename = (char *) calloc(MAX_FILENAME_SIZE,sizeof(char));
+ memcpy(base_filename, filename, MAX_FILENAME_SIZE*sizeof(char));
+ fasta_file_pointer = fopen(base_filename, "w");
+
+ for(sample_counter=0; sample_counter< number_of_samples; sample_counter++)
+ {
+ fprintf( fasta_file_pointer, ">%s\n", sequence_names[sample_counter]);
+ for(snp_counter=0; snp_counter< number_of_snps; snp_counter++)
+ {
+ fprintf( fasta_file_pointer, "%c", bases_for_snps[snp_counter][sample_counter]);
+ }
+ fprintf( fasta_file_pointer, "\n");
+ }
+ fclose(fasta_file_pointer);
+ free(base_filename);
+}
diff --git a/src/fasta-of-snp-sites.h b/src/fasta-of-snp-sites.h
new file mode 100644
index 0000000..9fe0304
--- /dev/null
+++ b/src/fasta-of-snp-sites.h
@@ -0,0 +1,26 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2013 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+
+#ifndef _FASTA_OF_SNP_SITES_
+#define _FASTA_OF_SNP_SITES_
+
+void create_fasta_of_snp_sites(char filename[], int number_of_snps, char ** bases_for_snps, char ** sequence_names, int number_of_samples);
+#define MAX_FILENAME_SIZE 250
+#endif
diff --git a/src/kseq.h b/src/kseq.h
new file mode 100644
index 0000000..3c641cb
--- /dev/null
+++ b/src/kseq.h
@@ -0,0 +1,235 @@
+/* The MIT License
+
+ Copyright (c) 2008, 2009, 2011 Attractive Chaos <attractor at live.co.uk>
+
+ Permission is hereby granted, free of charge, to any person obtaining
+ a copy of this software and associated documentation files (the
+ "Software"), to deal in the Software without restriction, including
+ without limitation the rights to use, copy, modify, merge, publish,
+ distribute, sublicense, and/or sell copies of the Software, and to
+ permit persons to whom the Software is furnished to do so, subject to
+ the following conditions:
+
+ The above copyright notice and this permission notice shall be
+ included in all copies or substantial portions of the Software.
+
+ THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
+ EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
+ MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
+ NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS
+ BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN
+ ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN
+ CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+ SOFTWARE.
+*/
+
+/* Last Modified: 05MAR2012 */
+
+#ifndef AC_KSEQ_H
+#define AC_KSEQ_H
+
+#include <ctype.h>
+#include <string.h>
+#include <stdlib.h>
+
+#define KS_SEP_SPACE 0 // isspace(): \t, \n, \v, \f, \r
+#define KS_SEP_TAB 1 // isspace() && !' '
+#define KS_SEP_LINE 2 // line separator: "\n" (Unix) or "\r\n" (Windows)
+#define KS_SEP_MAX 2
+
+#define __KS_TYPE(type_t) \
+ typedef struct __kstream_t { \
+ unsigned char *buf; \
+ int begin, end, is_eof; \
+ type_t f; \
+ } kstream_t;
+
+#define ks_eof(ks) ((ks)->is_eof && (ks)->begin >= (ks)->end)
+#define ks_rewind(ks) ((ks)->is_eof = (ks)->begin = (ks)->end = 0)
+
+#define __KS_BASIC(type_t, __bufsize) \
+ static inline kstream_t *ks_init(type_t f) \
+ { \
+ kstream_t *ks = (kstream_t*)calloc(1, sizeof(kstream_t)); \
+ ks->f = f; \
+ ks->buf = (unsigned char*)malloc(__bufsize); \
+ return ks; \
+ } \
+ static inline void ks_destroy(kstream_t *ks) \
+ { \
+ if (ks) { \
+ free(ks->buf); \
+ free(ks); \
+ } \
+ }
+
+#define __KS_GETC(__read, __bufsize) \
+ static inline int ks_getc(kstream_t *ks) \
+ { \
+ if (ks->is_eof && ks->begin >= ks->end) return -1; \
+ if (ks->begin >= ks->end) { \
+ ks->begin = 0; \
+ ks->end = __read(ks->f, ks->buf, __bufsize); \
+ if (ks->end < __bufsize) ks->is_eof = 1; \
+ if (ks->end == 0) return -1; \
+ } \
+ return (int)ks->buf[ks->begin++]; \
+ }
+
+#ifndef KSTRING_T
+#define KSTRING_T kstring_t
+typedef struct __kstring_t {
+ size_t l, m;
+ char *s;
+} kstring_t;
+#endif
+
+#ifndef kroundup32
+#define kroundup32(x) (--(x), (x)|=(x)>>1, (x)|=(x)>>2, (x)|=(x)>>4, (x)|=(x)>>8, (x)|=(x)>>16, ++(x))
+#endif
+
+#define __KS_GETUNTIL(__read, __bufsize) \
+ static int ks_getuntil2(kstream_t *ks, int delimiter, kstring_t *str, int *dret, int append) \
+ { \
+ if (dret) *dret = 0; \
+ str->l = append? str->l : 0; \
+ if (ks->begin >= ks->end && ks->is_eof) return -1; \
+ for (;;) { \
+ int i; \
+ if (ks->begin >= ks->end) { \
+ if (!ks->is_eof) { \
+ ks->begin = 0; \
+ ks->end = __read(ks->f, ks->buf, __bufsize); \
+ if (ks->end < __bufsize) ks->is_eof = 1; \
+ if (ks->end == 0) break; \
+ } else break; \
+ } \
+ if (delimiter == KS_SEP_LINE) { \
+ for (i = ks->begin; i < ks->end; ++i) \
+ if (ks->buf[i] == '\n') break; \
+ } else if (delimiter > KS_SEP_MAX) { \
+ for (i = ks->begin; i < ks->end; ++i) \
+ if (ks->buf[i] == delimiter) break; \
+ } else if (delimiter == KS_SEP_SPACE) { \
+ for (i = ks->begin; i < ks->end; ++i) \
+ if (isspace(ks->buf[i])) break; \
+ } else if (delimiter == KS_SEP_TAB) { \
+ for (i = ks->begin; i < ks->end; ++i) \
+ if (isspace(ks->buf[i]) && ks->buf[i] != ' ') break; \
+ } else i = 0; /* never come to here! */ \
+ if (str->m - str->l < (size_t)(i - ks->begin + 1)) { \
+ str->m = str->l + (i - ks->begin) + 1; \
+ kroundup32(str->m); \
+ str->s = (char*)realloc(str->s, str->m); \
+ } \
+ memcpy(str->s + str->l, ks->buf + ks->begin, i - ks->begin); \
+ str->l = str->l + (i - ks->begin); \
+ ks->begin = i + 1; \
+ if (i < ks->end) { \
+ if (dret) *dret = ks->buf[i]; \
+ break; \
+ } \
+ } \
+ if (str->s == 0) { \
+ str->m = 1; \
+ str->s = (char*)calloc(1, 1); \
+ } else if (delimiter == KS_SEP_LINE && str->l > 1 && str->s[str->l-1] == '\r') --str->l; \
+ str->s[str->l] = '\0'; \
+ return str->l; \
+ } \
+ static inline int ks_getuntil(kstream_t *ks, int delimiter, kstring_t *str, int *dret) \
+ { return ks_getuntil2(ks, delimiter, str, dret, 0); }
+
+#define KSTREAM_INIT(type_t, __read, __bufsize) \
+ __KS_TYPE(type_t) \
+ __KS_BASIC(type_t, __bufsize) \
+ __KS_GETC(__read, __bufsize) \
+ __KS_GETUNTIL(__read, __bufsize)
+
+#define kseq_rewind(ks) ((ks)->last_char = (ks)->f->is_eof = (ks)->f->begin = (ks)->f->end = 0)
+
+#define __KSEQ_BASIC(SCOPE, type_t) \
+ SCOPE kseq_t *kseq_init(type_t fd) \
+ { \
+ kseq_t *s = (kseq_t*)calloc(1, sizeof(kseq_t)); \
+ s->f = ks_init(fd); \
+ return s; \
+ } \
+ SCOPE void kseq_destroy(kseq_t *ks) \
+ { \
+ if (!ks) return; \
+ free(ks->name.s); free(ks->comment.s); free(ks->seq.s); free(ks->qual.s); \
+ ks_destroy(ks->f); \
+ free(ks); \
+ }
+
+/* Return value:
+ >=0 length of the sequence (normal)
+ -1 end-of-file
+ -2 truncated quality string
+ */
+#define __KSEQ_READ(SCOPE) \
+ SCOPE int kseq_read(kseq_t *seq) \
+ { \
+ int c; \
+ kstream_t *ks = seq->f; \
+ if (seq->last_char == 0) { /* then jump to the next header line */ \
+ while ((c = ks_getc(ks)) != -1 && c != '>' && c != '@'); \
+ if (c == -1) return -1; /* end of file */ \
+ seq->last_char = c; \
+ } /* else: the first header char has been read in the previous call */ \
+ seq->comment.l = seq->seq.l = seq->qual.l = 0; /* reset all members */ \
+ if (ks_getuntil(ks, 0, &seq->name, &c) < 0) return -1; /* normal exit: EOF */ \
+ if (c != '\n') ks_getuntil(ks, KS_SEP_LINE, &seq->comment, 0); /* read FASTA/Q comment */ \
+ if (seq->seq.s == 0) { /* we can do this in the loop below, but that is slower */ \
+ seq->seq.m = 256; \
+ seq->seq.s = (char*)malloc(seq->seq.m); \
+ } \
+ while ((c = ks_getc(ks)) != -1 && c != '>' && c != '+' && c != '@') { \
+ if (c == '\n') continue; /* skip empty lines */ \
+ seq->seq.s[seq->seq.l++] = c; /* this is safe: we always have enough space for 1 char */ \
+ ks_getuntil2(ks, KS_SEP_LINE, &seq->seq, 0, 1); /* read the rest of the line */ \
+ } \
+ if (c == '>' || c == '@') seq->last_char = c; /* the first header char has been read */ \
+ if (seq->seq.l + 1 >= seq->seq.m) { /* seq->seq.s[seq->seq.l] below may be out of boundary */ \
+ seq->seq.m = seq->seq.l + 2; \
+ kroundup32(seq->seq.m); /* rounded to the next closest 2^k */ \
+ seq->seq.s = (char*)realloc(seq->seq.s, seq->seq.m); \
+ } \
+ seq->seq.s[seq->seq.l] = 0; /* null terminated string */ \
+ if (c != '+') return seq->seq.l; /* FASTA */ \
+ if (seq->qual.m < seq->seq.m) { /* allocate memory for qual in case insufficient */ \
+ seq->qual.m = seq->seq.m; \
+ seq->qual.s = (char*)realloc(seq->qual.s, seq->qual.m); \
+ } \
+ while ((c = ks_getc(ks)) != -1 && c != '\n'); /* skip the rest of '+' line */ \
+ if (c == -1) return -2; /* error: no quality string */ \
+ while (ks_getuntil2(ks, KS_SEP_LINE, &seq->qual, 0, 1) >= 0 && seq->qual.l < seq->seq.l); \
+ seq->last_char = 0; /* we have not come to the next header line */ \
+ if (seq->seq.l != seq->qual.l) return -2; /* error: qual string is of a different length */ \
+ return seq->seq.l; \
+ }
+
+#define __KSEQ_TYPE(type_t) \
+ typedef struct { \
+ kstring_t name, comment, seq, qual; \
+ int last_char; \
+ kstream_t *f; \
+ } kseq_t;
+
+#define KSEQ_INIT2(SCOPE, type_t, __read) \
+ KSTREAM_INIT(type_t, __read, 2048) \
+ __KSEQ_TYPE(type_t) \
+ __KSEQ_BASIC(SCOPE, type_t) \
+ __KSEQ_READ(SCOPE)
+
+#define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
+
+#define KSEQ_DECLARE(type_t) \
+ __KS_TYPE(type_t) \
+ __KSEQ_TYPE(type_t) \
+ extern kseq_t *kseq_init(type_t fd); \
+ void kseq_destroy(kseq_t *ks); \
+ int kseq_read(kseq_t *seq);
+
+#endif
\ No newline at end of file
diff --git a/src/main.c b/src/main.c
new file mode 100644
index 0000000..05322a8
--- /dev/null
+++ b/src/main.c
@@ -0,0 +1,88 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2013 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+
+#include <stdio.h>
+#include <stdlib.h>
+#include <string.h>
+#include <ctype.h>
+#include <unistd.h>
+#include "snp-sites.h"
+#include "string-cat.h"
+
+#define MAX_FILENAME_SIZE 250
+
+static void print_usage()
+{
+ printf("Usage: snp_sites [-mvph] [-o output_filename] <file>\n");
+ printf("This program finds snp sites from a multi fasta alignment file.\n");
+ printf(" -m output a multi fasta alignment file (default)\n");
+ printf(" -v output a VCF file\n");
+ printf(" -p output a phylip file\n");
+ printf(" -o specify an output filename\n");
+ printf(" -h this help message\n");
+ printf(" <file> input alignment file which can optionally be gzipped\n");
+}
+
+int main (int argc, char **argv) {
+ char multi_fasta_filename[MAX_FILENAME_SIZE] = {""};
+ char output_filename[MAX_FILENAME_SIZE] = {""};
+
+ int c;
+ int index;
+ int output_multi_fasta_file = 0;
+ int output_vcf_file = 0;
+ int output_phylip_file = 0;
+
+ while ((c = getopt (argc, argv, "mvpo:")) != -1)
+ switch (c)
+ {
+ case 'm':
+ output_multi_fasta_file = 1;
+ break;
+ case 'v':
+ output_vcf_file = 1;
+ break;
+ case 'p':
+ output_phylip_file = 1;
+ break;
+ case 'o':
+ memcpy(output_filename, optarg, size_of_string(optarg) +1);
+ break;
+ case 'h':
+ print_usage();
+ return 0;
+ default:
+ output_multi_fasta_file = 1;
+ }
+
+ if(optind < argc)
+ {
+ memcpy(multi_fasta_filename, argv[optind], size_of_string(argv[optind]) +1);
+ generate_snp_sites(multi_fasta_filename, output_multi_fasta_file, output_vcf_file, output_phylip_file, output_filename);
+ }
+ else
+ {
+ print_usage();
+ }
+
+ return 0;
+}
+
+
diff --git a/src/parse-phylip.c b/src/parse-phylip.c
new file mode 100644
index 0000000..bfccca0
--- /dev/null
+++ b/src/parse-phylip.c
@@ -0,0 +1,51 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2013 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+
+
+#include <stdio.h>
+#include <stdlib.h>
+#include <string.h>
+#include "parse-phylip.h"
+#include "alignment-file.h"
+#include "string-cat.h"
+
+int num_samples;
+int num_snps;
+char ** sequences;
+char ** phylip_sample_names;
+
+
+int does_column_contain_snps(int snp_column, char reference_base)
+{
+ int i;
+ for(i = 0; i < num_samples; i++)
+ {
+ if(sequences[i][snp_column] == '\0' || sequences[i][snp_column] == '\n')
+ {
+ return 0;
+ }
+
+ if(sequences[i][snp_column] != '-' && toupper(sequences[i][snp_column]) != 'N' && sequences[i][snp_column] != reference_base)
+ {
+ return 1;
+ }
+ }
+ return 0;
+}
diff --git a/src/parse-phylip.h b/src/parse-phylip.h
new file mode 100644
index 0000000..2d994a8
--- /dev/null
+++ b/src/parse-phylip.h
@@ -0,0 +1,33 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2013 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+
+#ifndef _PARSE_PHYLIP_H_
+#define _PARSE_PHYLIP_H_
+
+int does_column_contain_snps(int snp_column, char reference_base);
+
+#define MAX_READ_BUFFER 65536
+#define MAX_SAMPLE_NAME_SIZE 1024
+
+#endif
+
+
+
+
diff --git a/src/phylib-of-snp-sites.c b/src/phylib-of-snp-sites.c
new file mode 100644
index 0000000..68caa65
--- /dev/null
+++ b/src/phylib-of-snp-sites.c
@@ -0,0 +1,55 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2013 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+
+
+#include <stdio.h>
+#include <stdlib.h>
+#include <string.h>
+#include "phylib-of-snp-sites.h"
+
+
+void create_phylib_of_snp_sites(char filename[], int number_of_snps, char ** bases_for_snps, char ** sequence_names, int number_of_samples)
+{
+ FILE *fasta_file_pointer;
+ int sample_counter;
+ int snp_counter;
+ char * base_filename;
+
+ base_filename = (char *) calloc(MAX_FILENAME_SIZE,sizeof(char));
+ memcpy(base_filename, filename, MAX_FILENAME_SIZE*sizeof(char));
+ fasta_file_pointer = fopen(base_filename, "w");
+
+ fprintf( fasta_file_pointer, "%d %d\n", number_of_samples, number_of_snps);
+
+ for(sample_counter=0; sample_counter< number_of_samples; sample_counter++)
+ {
+ // sequence_name can be more than 10 (relaxed phylib format) and contain [\w\s]
+ //TODO check for illegal characters [^\w\s]
+ fprintf( fasta_file_pointer, "%s\t", sequence_names[sample_counter]);
+
+ for(snp_counter=0; snp_counter< number_of_snps; snp_counter++)
+ {
+ fprintf( fasta_file_pointer, "%c", bases_for_snps[snp_counter][sample_counter]);
+ }
+ fprintf( fasta_file_pointer, "\n");
+ }
+ fclose(fasta_file_pointer);
+ free(base_filename);
+}
diff --git a/src/phylib-of-snp-sites.h b/src/phylib-of-snp-sites.h
new file mode 100644
index 0000000..28b7ba2
--- /dev/null
+++ b/src/phylib-of-snp-sites.h
@@ -0,0 +1,27 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2013 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+
+
+#ifndef _PHYLIB_OF_SNP_SITES_
+#define _PHYLIB_OF_SNP_SITES_
+
+void create_phylib_of_snp_sites(char filename[], int number_of_snps, char ** bases_for_snps, char ** sequence_names, int number_of_samples);
+#define MAX_FILENAME_SIZE 250
+#endif
diff --git a/src/snp-sites.c b/src/snp-sites.c
new file mode 100644
index 0000000..2e2bb47
--- /dev/null
+++ b/src/snp-sites.c
@@ -0,0 +1,235 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2013 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+
+
+#include <stdio.h>
+#include <stdlib.h>
+#include <string.h>
+#include <regex.h>
+#include "vcf.h"
+#include "alignment-file.h"
+#include "snp-sites.h"
+#include "phylib-of-snp-sites.h"
+#include "parse-phylip.h"
+#include "string-cat.h"
+
+
+void build_snp_locations(int snp_locations[], char reference_sequence[])
+{
+ int i;
+ int snp_counter = 0;
+
+ for(i = 0; reference_sequence[i]; i++)
+ {
+ if(reference_sequence[i] == '*')
+ {
+ snp_locations[snp_counter] = i;
+ snp_counter++;
+ }
+ }
+}
+
+
+int generate_snp_sites(char filename[],int output_multi_fasta_file, int output_vcf_file, int output_phylip_file, char output_filename[])
+{
+ int length_of_genome;
+ char * reference_sequence;
+ int number_of_snps;
+ int * snp_locations;
+ int number_of_samples;
+ int i;
+
+
+
+ length_of_genome = genome_length(filename);
+ reference_sequence = (char *) calloc((length_of_genome +1),sizeof(char));
+
+ build_reference_sequence(reference_sequence,filename);
+ number_of_snps = detect_snps(reference_sequence, filename, length_of_genome);
+
+ snp_locations = (int *) calloc((number_of_snps+1),sizeof(int));
+ build_snp_locations(snp_locations, reference_sequence);
+ free(reference_sequence);
+
+ number_of_samples = number_of_sequences_in_file(filename);
+
+ // Find out the names of the sequences
+ char* sequence_names[number_of_samples];
+ sequence_names[number_of_samples-1] = '\0';
+ for(i = 0; i < number_of_samples; i++)
+ {
+ sequence_names[i] = calloc(MAX_SAMPLE_NAME_SIZE,sizeof(char));
+ }
+
+ get_sample_names_for_header(filename, sequence_names, number_of_samples);
+
+ char* bases_for_snps[number_of_snps];
+
+ for(i = 0; i < number_of_snps; i++)
+ {
+ bases_for_snps[i] = calloc(number_of_samples+1 ,sizeof(char));
+ }
+
+ get_bases_for_each_snp(filename, snp_locations, bases_for_snps, length_of_genome, number_of_snps);
+
+ char output_filename_base[MAX_FILENAME_SIZE];
+ char filename_without_directory[MAX_FILENAME_SIZE];
+ strip_directory_from_filename(filename, filename_without_directory);
+ memcpy(output_filename_base,filename_without_directory, size_of_string(filename_without_directory)+1 );
+
+ if(output_filename != NULL && *output_filename != '\0')
+ {
+ memcpy(output_filename_base,output_filename, size_of_string(output_filename)+1 );
+ }
+
+ if(output_vcf_file)
+ {
+ char * vcf_output_filename;
+ vcf_output_filename = calloc(MAX_FILENAME_SIZE,sizeof(char));
+ memcpy(vcf_output_filename, output_filename_base, (MAX_FILENAME_SIZE)*sizeof(char));
+ if((output_vcf_file + output_phylip_file + output_multi_fasta_file) > 1 || (output_filename == NULL || *output_filename == '\0') )
+ {
+ char extension[5] = {".vcf"};
+ concat_strings_created_with_malloc(vcf_output_filename,extension);
+ }
+
+ create_vcf_file(vcf_output_filename, snp_locations, number_of_snps, bases_for_snps, sequence_names, number_of_samples);
+ free(vcf_output_filename);
+ }
+
+ if(output_phylip_file)
+ {
+ char *phylip_output_filename;
+ phylip_output_filename = calloc(MAX_FILENAME_SIZE,sizeof(char));
+ memcpy(phylip_output_filename, output_filename_base, (MAX_FILENAME_SIZE)*sizeof(char));
+ if((output_vcf_file + output_phylip_file + output_multi_fasta_file) > 1 || (output_filename == NULL || *output_filename == '\0') )
+ {
+ char extension[10] = {".phylip"};
+ concat_strings_created_with_malloc(phylip_output_filename,extension);
+ }
+ create_phylib_of_snp_sites(phylip_output_filename, number_of_snps, bases_for_snps, sequence_names, number_of_samples);
+ free(phylip_output_filename);
+ }
+
+ if((output_multi_fasta_file) || (output_vcf_file ==0 && output_phylip_file == 0 && output_multi_fasta_file == 0))
+ {
+ char *multi_fasta_output_filename;
+ multi_fasta_output_filename = calloc(MAX_FILENAME_SIZE,sizeof(char));
+ memcpy(multi_fasta_output_filename, output_filename_base, (MAX_FILENAME_SIZE)*sizeof(char));
+ if((output_vcf_file + output_phylip_file + output_multi_fasta_file) > 1 || (output_filename == NULL || *output_filename == '\0') )
+ {
+ char extension[20] = {".snp_sites.aln"};
+ concat_strings_created_with_malloc(multi_fasta_output_filename,extension);
+ }
+ create_fasta_of_snp_sites(multi_fasta_output_filename, number_of_snps, bases_for_snps, sequence_names, number_of_samples);
+ free(multi_fasta_output_filename);
+ }
+
+ // free memory
+ free(snp_locations);
+ for(i = 0; i < number_of_samples; i++)
+ {
+ free(sequence_names[i]);
+ }
+ for(i = 0; i < number_of_snps; i++)
+ {
+ free(bases_for_snps[i]);
+ }
+
+
+ return 1;
+}
+
+// Inefficient
+void strip_directory_from_filename(char * input_filename, char * output_filename)
+{
+ int i;
+ int end_index = 0;
+ int last_forward_slash_index = -1;
+ for(i = 0; i< MAX_FILENAME_SIZE; i++)
+ {
+ if(input_filename[i] == '/')
+ {
+ last_forward_slash_index = i;
+ }
+
+ if(input_filename[i] == '\0' || input_filename[i] == '\n')
+ {
+ end_index = i;
+ break;
+ }
+ }
+
+ int current_index = 0;
+ for(i = last_forward_slash_index+1; i< end_index; i++)
+ {
+ output_filename[current_index] = input_filename[i];
+ current_index++;
+ }
+ output_filename[current_index] = '\0';
+}
+
+// return new number of snps
+int refilter_existing_snps(char * reference_bases, int number_of_snps, char ** column_names, int number_of_columns,int * snp_locations, int * filtered_snp_locations)
+{
+ // go through each snp column and check to see if there is still variation
+ int i;
+ int number_of_filtered_snps = number_of_snps;
+ for(i = 0; i < number_of_snps; i++)
+ {
+ if( does_column_contain_snps(i, reference_bases[i]) == 0)
+ {
+ snp_locations[i] = -1;
+ reference_bases[i] = '*';
+
+ number_of_filtered_snps--;
+ }
+ }
+
+ remove_filtered_snp_locations(filtered_snp_locations, snp_locations, number_of_snps);
+ return number_of_filtered_snps;
+}
+
+void remove_filtered_snp_locations(int * filtered_snp_locations, int * snp_locations, int number_of_snps)
+{
+ int i;
+ int filtered_counter=0;
+ for(i = 0; i< number_of_snps; i++)
+ {
+ if(snp_locations[i] != -1)
+ {
+ filtered_snp_locations[filtered_counter] = snp_locations[i];
+ filtered_counter++;
+ }
+ }
+}
+
+
+
+
+
+
+
+
+
+
+
+
+
diff --git a/src/snp-sites.h b/src/snp-sites.h
new file mode 100644
index 0000000..6d28404
--- /dev/null
+++ b/src/snp-sites.h
@@ -0,0 +1,33 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2013 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+
+#ifndef _SNP_SITES_H_
+#define _SNP_SITES_H_
+
+void build_snp_locations(int snp_locations[], char reference_sequence[]);
+int generate_snp_sites(char filename[],int output_multi_fasta_file, int output_vcf_file, int output_phylip_file, char output_filename[]);
+int refilter_existing_snps(char * reference_bases, int number_of_snps, char ** column_names, int number_of_columns,int * snp_locations, int * filtered_snp_locations);
+void remove_filtered_snp_locations(int * filtered_snp_locations, int * snp_locations, int number_of_snps);
+void strip_directory_from_filename(char * input_filename, char * output_filename);
+
+#define MAX_FILENAME_SIZE 250
+#define MAX_SAMPLE_NAME_SIZE 1024
+
+#endif
diff --git a/src/string-cat.c b/src/string-cat.c
new file mode 100644
index 0000000..6385e3b
--- /dev/null
+++ b/src/string-cat.c
@@ -0,0 +1,42 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2013 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+
+#include <stdio.h>
+#include <stdlib.h>
+#include <string.h>
+
+
+int size_of_string(char *input_string)
+{
+ int i = 0;
+
+ while( input_string[i] != '\0')
+ {
+ i++;
+ }
+ return i;
+}
+
+void concat_strings_created_with_malloc(char *input_string, char *string_to_concat)
+{
+ int input_str_size = size_of_string(input_string);
+ int to_concat_str_size = size_of_string(string_to_concat);
+ memcpy(input_string + input_str_size, string_to_concat, (to_concat_str_size+1)*sizeof(char));
+}
diff --git a/src/string-cat.h b/src/string-cat.h
new file mode 100644
index 0000000..c521a6a
--- /dev/null
+++ b/src/string-cat.h
@@ -0,0 +1,28 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2013 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+
+#ifndef _STRING_CAT_H_
+#define _STRING_CAT_H_
+
+void concat_strings_created_with_malloc(char *input_string, char *string_to_concat);
+int size_of_string(char *input_string);
+
+#endif
+
diff --git a/src/vcf.c b/src/vcf.c
new file mode 100644
index 0000000..e918828
--- /dev/null
+++ b/src/vcf.c
@@ -0,0 +1,178 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2013 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+
+
+#include <stdio.h>
+#include <stdlib.h>
+#include <string.h>
+#include <regex.h>
+#include "vcf.h"
+#include "alignment-file.h"
+#include "snp-sites.h"
+
+
+
+void create_vcf_file(char filename[], int snp_locations[],int number_of_snps, char ** bases_for_snps, char ** sequence_names, int number_of_samples)
+{
+ FILE *vcf_file_pointer;
+ char * base_filename;
+ base_filename = (char *) malloc(MAX_FILENAME_SIZE*sizeof(char));
+ strcpy(base_filename, filename);
+
+ vcf_file_pointer=fopen(base_filename, "w");
+ output_vcf_header(vcf_file_pointer,sequence_names, number_of_samples);
+ output_vcf_snps(vcf_file_pointer, bases_for_snps, snp_locations, number_of_snps, number_of_samples);
+ fclose(vcf_file_pointer);
+ free(base_filename);
+}
+
+void output_vcf_snps(FILE * vcf_file_pointer, char ** bases_for_snps, int * snp_locations, int number_of_snps, int number_of_samples)
+{
+ int i;
+ for(i=0; i < number_of_snps; i++)
+ {
+ output_vcf_row(vcf_file_pointer, bases_for_snps[i], snp_locations[i], number_of_samples);
+ }
+}
+
+void output_vcf_header( FILE * vcf_file_pointer, char ** sequence_names, int number_of_samples)
+{
+ int i;
+ fprintf( vcf_file_pointer, "##fileformat=VCFv4.1\n" );
+ fprintf( vcf_file_pointer, "##INFO=<ID=AB,Number=1,Type=String,Description=\"Alt Base\">\n" );
+ fprintf( vcf_file_pointer, "#CHROM\tPOS\tID\tREF\tALT\tQUAL\tFILTER\tINFO\tFORMAT\t" );
+
+ for(i=0; i<number_of_samples; i++)
+ {
+ fprintf( vcf_file_pointer, "%s\t", sequence_names[i]);
+ }
+ fprintf( vcf_file_pointer, "\n");
+}
+
+void output_vcf_row(FILE * vcf_file_pointer, char * bases_for_snp, int snp_location, int number_of_samples)
+{
+ char reference_base = bases_for_snp[0];
+ char alt_bases[30];
+ if(reference_base == '\0')
+ {
+ return;
+ }
+
+ // Chromosome
+ fprintf( vcf_file_pointer, "1\t");
+
+ // Position
+ fprintf( vcf_file_pointer, "%d\t", (int) snp_location +1 );
+
+ //ID
+ fprintf( vcf_file_pointer, ".\t");
+
+ // REF
+ fprintf( vcf_file_pointer, "%c\t", (char) reference_base );
+
+ // ALT
+ // Need to look through list and find unique characters
+
+ alternative_bases(reference_base, bases_for_snp, alt_bases, number_of_samples);
+ fprintf( vcf_file_pointer, "%s\t", alt_bases);
+
+ // QUAL
+ fprintf( vcf_file_pointer, ".\t");
+
+ // FILTER
+ fprintf( vcf_file_pointer, ".\t");
+
+ // FORMAT
+ fprintf( vcf_file_pointer, "AB\t");
+
+ // INFO
+ fprintf( vcf_file_pointer, ".\t");
+
+ // Bases for each sample
+ output_vcf_row_samples_bases(vcf_file_pointer, reference_base, bases_for_snp, number_of_samples );
+
+ fprintf( vcf_file_pointer, "\n");
+}
+
+
+void alternative_bases(char reference_base, char * bases_for_snp, char alt_bases[], int number_of_samples)
+{
+ int i;
+ int num_alt_bases = 0;
+ for(i=0; i< number_of_samples; i++ )
+ {
+ if((bases_for_snp[i] != reference_base) && (bases_for_snp[i] != '-') && (toupper(bases_for_snp[i]) != 'N') )
+ {
+ if(check_if_char_in_string(alt_bases, bases_for_snp[i], num_alt_bases) == 0)
+ {
+ alt_bases[num_alt_bases] = bases_for_snp[i];
+ num_alt_bases++;
+ alt_bases[num_alt_bases] = ',';
+ num_alt_bases++;
+ }
+ }
+ }
+ if(num_alt_bases > 0 && alt_bases[num_alt_bases-1] == ',')
+ {
+ alt_bases[num_alt_bases-1] = '\0';
+ }
+ else
+ {
+ alt_bases[num_alt_bases] = '\0';
+ }
+}
+
+int check_if_char_in_string(char search_string[], char target_char, int search_string_length)
+{
+ int i;
+ for(i=0; i < search_string_length ; i++ )
+ {
+ if(search_string[i] == target_char)
+ {
+ return 1;
+ }
+ }
+ return 0;
+}
+
+void output_vcf_row_samples_bases(FILE * vcf_file_pointer, char reference_base, char * bases_for_snp, int number_of_samples)
+{
+ int i;
+
+ for(i=0; i < number_of_samples ; i++ )
+ {
+ if((bases_for_snp[i] == reference_base) || (bases_for_snp[i] == '-') || (toupper(bases_for_snp[i]) == 'N') )
+ {
+ fprintf( vcf_file_pointer, "." );
+ }
+ else
+ {
+ fprintf( vcf_file_pointer, "%c", (char) bases_for_snp[i] );
+ }
+ if(i+1 != number_of_samples)
+ {
+ fprintf( vcf_file_pointer, "\t");
+ }
+ }
+}
+
+
+
+
diff --git a/src/vcf.h b/src/vcf.h
new file mode 100644
index 0000000..764f5d1
--- /dev/null
+++ b/src/vcf.h
@@ -0,0 +1,33 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2013 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+
+#ifndef _VCF_H_
+#define _VCF_H_
+
+void output_vcf_header( FILE * vcf_file_pointer, char ** sequence_names, int number_of_samples);
+void create_vcf_file(char filename[], int snp_locations[], int number_of_snps, char ** bases_for_snps, char ** sequence_names, int number_of_samples);
+void output_vcf_snps(FILE * vcf_file_pointer, char ** bases_for_snps, int * snp_locations, int number_of_snps, int number_of_samples);
+void output_vcf_row(FILE * vcf_file_pointer, char * bases_for_snp, int snp_location, int number_of_samples);
+void output_vcf_row_samples_bases(FILE * vcf_file_pointer, char reference_base, char * bases_for_snp, int number_of_samples);
+void alternative_bases(char reference_base, char * bases_for_snp, char alt_bases[], int number_of_samples);
+int check_if_char_in_string(char search_string[], char target_char, int search_string_length);
+#define MAX_FILENAME_SIZE 250
+
+#endif
diff --git a/tests/check-snp-sites.c b/tests/check-snp-sites.c
new file mode 100644
index 0000000..afd4516
--- /dev/null
+++ b/tests/check-snp-sites.c
@@ -0,0 +1,260 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2013 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 2
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+#include <stdio.h>
+#include <stdlib.h>
+#include <string.h>
+#include <check.h>
+#include <sys/stat.h>
+#include <fcntl.h>
+#include <unistd.h>
+#include <errno.h>
+#include "check-snp-sites.h"
+#include "snp-sites.h"
+#include "alignment-file.h"
+#include "helper-methods.h"
+
+START_TEST (valid_alignment_with_one_line_per_sequence)
+{
+ generate_snp_sites("../tests/data/alignment_file_one_line_per_sequence.aln",1,1,1,"");
+ fail_unless( compare_files("../tests/data/alignment_file_one_line_per_sequence.aln.vcf", "alignment_file_one_line_per_sequence.aln.vcf" ) == 1, "Invalid VCF file for 1 line per seq" );
+ fail_unless( compare_files("../tests/data/alignment_file_one_line_per_sequence.aln.phylip", "alignment_file_one_line_per_sequence.aln.phylip" ) == 1, "Invalid Phylip file for 1 line per seq" );
+ fail_unless( compare_files("../tests/data/alignment_file_one_line_per_sequence.aln.snp_sites.aln","alignment_file_one_line_per_sequence.aln.snp_sites.aln" ) == 1 , "Invalid ALN file for 1 line per seq");
+ remove("alignment_file_one_line_per_sequence.aln.vcf");
+ remove("alignment_file_one_line_per_sequence.aln.phylip");
+ remove("alignment_file_one_line_per_sequence.aln.snp_sites.aln");
+}
+END_TEST
+
+
+START_TEST (valid_alignment_with_n_as_gap)
+{
+ generate_snp_sites("../tests/data/alignment_file_with_n.aln",1,1,1, "");
+ fail_unless( compare_files("../tests/data/alignment_file_with_n.aln.vcf", "alignment_file_with_n.aln.vcf" ) == 1, "Invalid VCF file for 1 line per seq" );
+ fail_unless( compare_files("../tests/data/alignment_file_with_n.aln.phylip", "alignment_file_with_n.aln.phylip" ) == 1, "Invalid Phylip file for 1 line per seq" );
+ fail_unless( compare_files("../tests/data/alignment_file_with_n.aln.snp_sites.aln","alignment_file_with_n.aln.snp_sites.aln" ) == 1 , "Invalid ALN file for 1 line per seq");
+ remove("alignment_file_with_n.aln.vcf");
+ remove("alignment_file_with_n.aln.phylip");
+ remove("alignment_file_with_n.aln.snp_sites.aln");
+}
+END_TEST
+
+
+
+START_TEST (valid_alignment_with_one_line_per_sequence_gzipped)
+{
+ generate_snp_sites("../tests/data/alignment_file_one_line_per_sequence.aln.gz",1,1,1, NULL);
+ fail_unless( compare_files("../tests/data/alignment_file_one_line_per_sequence.aln.vcf", "alignment_file_one_line_per_sequence.aln.gz.vcf" ) == 1, "Invalid VCF file for 1 line per seq" );
+ fail_unless( compare_files("../tests/data/alignment_file_one_line_per_sequence.aln.phylip", "alignment_file_one_line_per_sequence.aln.gz.phylip" ) == 1, "Invalid Phylip file for 1 line per seq" );
+ fail_unless( compare_files("../tests/data/alignment_file_one_line_per_sequence.aln.snp_sites.aln","alignment_file_one_line_per_sequence.aln.gz.snp_sites.aln" ) == 1 , "Invalid ALN file for 1 line per seq");
+ remove("alignment_file_one_line_per_sequence.aln.gz.vcf");
+ remove("alignment_file_one_line_per_sequence.aln.gz.phylip");
+ remove("alignment_file_one_line_per_sequence.aln.gz.snp_sites.aln");
+}
+END_TEST
+
+START_TEST (valid_alignment_with_multiple_lines_per_sequence)
+{
+ generate_snp_sites("../tests/data/alignment_file_multiple_lines_per_sequence.aln",1,1,1,"");
+ fail_unless( compare_files("../tests/data/alignment_file_one_line_per_sequence.aln.vcf", "alignment_file_multiple_lines_per_sequence.aln.vcf" ) == 1, "Invalid VCF file for multiple lines per seq" );
+ fail_unless( compare_files("../tests/data/alignment_file_one_line_per_sequence.aln.phylip", "alignment_file_multiple_lines_per_sequence.aln.phylip" ) == 1, "Invalid Phylip file for multiple lines per seq" );
+ fail_unless( compare_files("../tests/data/alignment_file_one_line_per_sequence.aln.snp_sites.aln","alignment_file_multiple_lines_per_sequence.aln.snp_sites.aln" ) == 1 ,"Invalid ALN file for multiple lines per seq");
+ remove("alignment_file_multiple_lines_per_sequence.aln.vcf");
+ remove("alignment_file_multiple_lines_per_sequence.aln.phylip");
+ remove("alignment_file_multiple_lines_per_sequence.aln.snp_sites.aln");
+}
+END_TEST
+
+START_TEST (valid_with_only_aln_file_output_default)
+{
+ generate_snp_sites("../tests/data/alignment_file_one_line_per_sequence.aln",0,0,0,"");
+ fail_unless( compare_files("../tests/data/alignment_file_one_line_per_sequence.aln.snp_sites.aln","alignment_file_one_line_per_sequence.aln.snp_sites.aln" ) == 1 ,"Invalid ALN file for multiple lines per seq");
+ remove("alignment_file_one_line_per_sequence.aln.snp_sites.aln");
+}
+END_TEST
+
+START_TEST (valid_with_only_aln_file_output)
+{
+ generate_snp_sites("../tests/data/alignment_file_one_line_per_sequence.aln",1,0,0,"");
+ fail_unless( compare_files("../tests/data/alignment_file_one_line_per_sequence.aln.snp_sites.aln","alignment_file_one_line_per_sequence.aln.snp_sites.aln" ) == 1 ,"Invalid ALN file for multiple lines per seq");
+ remove("alignment_file_one_line_per_sequence.aln.snp_sites.aln");
+}
+END_TEST
+
+START_TEST (valid_with_only_aln_file_output_with_custom_name)
+{
+ char output_filename[100] = {"some_custom_name"};
+ generate_snp_sites("../tests/data/alignment_file_multiple_lines_per_sequence.aln",1,0,0,output_filename);
+ fail_unless( compare_files("../tests/data/alignment_file_one_line_per_sequence.aln.snp_sites.aln","some_custom_name" ) == 1 ,"Only aln with custom name should be outputted");
+ remove("some_custom_name");
+}
+END_TEST
+
+START_TEST (valid_with_phylip_outputted_with_custom_name)
+{
+ generate_snp_sites("../tests/data/alignment_file_one_line_per_sequence.aln",0,0,1,"some_custom_name");
+ fail_unless( compare_files("../tests/data/alignment_file_one_line_per_sequence.aln.phylip", "some_custom_name" ) == 1, "Custom name needs extra extension for phylip" );
+ remove("some_custom_name");
+
+}
+END_TEST
+
+START_TEST (invalid_with_uneven_file_lengths)
+{
+ generate_snp_sites("../tests/data/uneven_alignment.aln",1,0,0,"");
+}
+END_TEST
+
+
+START_TEST (valid_with_all_outputted_with_custom_name)
+{
+ generate_snp_sites("../tests/data/alignment_file_one_line_per_sequence.aln",1,1,1,"some_custom_name");
+ fail_unless( compare_files("../tests/data/alignment_file_one_line_per_sequence.aln.vcf", "some_custom_name.vcf" ) == 1, "Custom name needs extra extension for VCF" );
+ fail_unless( compare_files("../tests/data/alignment_file_one_line_per_sequence.aln.phylip", "some_custom_name.phylip" ) == 1, "Custom name needs extra extension for phylip" );
+ fail_unless( compare_files("../tests/data/alignment_file_one_line_per_sequence.aln.snp_sites.aln","some_custom_name.snp_sites.aln" ) == 1 , "Custom name needs extra extension for ALN");
+ remove("some_custom_name.vcf");
+ remove("some_custom_name.phylip");
+ remove("some_custom_name.snp_sites.aln");
+}
+END_TEST
+
+
+START_TEST (valid_genome_length)
+{
+ fail_unless( genome_length("../tests/data/alignment_file_one_line_per_sequence.aln") == 2000 );
+}
+END_TEST
+
+START_TEST (valid_genome_length_with_multiple_lines_per_sequence)
+{
+ fail_unless( genome_length("../tests/data/alignment_file_multiple_lines_per_sequence.aln") == 2000 );
+}
+END_TEST
+
+START_TEST (valid_number_of_sequences_in_file)
+{
+ fail_unless( number_of_sequences_in_file("../tests/data/alignment_file_one_line_per_sequence.aln") == 109 );
+}
+END_TEST
+
+START_TEST (valid_number_of_sequences_in_file_with_multiple_lines_per_sequence)
+{
+ fail_unless( number_of_sequences_in_file("../tests/data/alignment_file_multiple_lines_per_sequence.aln") == 109 );
+}
+END_TEST
+
+START_TEST (valid_initial_reference_sequence)
+{
+ char actual_reference_sequence[2001];
+ char *expected_reference_sequence = "-------------------------CTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAG [...]
+ build_reference_sequence(actual_reference_sequence, "../tests/data/alignment_file_multiple_lines_per_sequence.aln") ;
+ fail_unless( strcmp(actual_reference_sequence,expected_reference_sequence) == 0 );
+}
+END_TEST
+
+START_TEST (number_of_snps_detected)
+{
+ char actual_reference_sequence[2001];
+ build_reference_sequence(actual_reference_sequence, "../tests/data/alignment_file_multiple_lines_per_sequence.aln") ;
+ fail_unless( detect_snps(actual_reference_sequence, "../tests/data/alignment_file_multiple_lines_per_sequence.aln", 2000) == 5);
+}
+END_TEST
+
+START_TEST (number_of_snps_detected_small)
+{
+ char actual_reference_sequence[9];
+ build_reference_sequence(actual_reference_sequence, "../tests/data/small_alignment.aln");
+ fail_unless( detect_snps(actual_reference_sequence, "../tests/data/small_alignment.aln", 8) == 1);
+}
+END_TEST
+
+
+START_TEST (sample_names_from_alignment_file)
+{
+ char *expected_sequence_names[] ={"reference_sequence","comparison_sequence","another_comparison_sequence"};
+ char* sequence_names[3];
+ int i = 0;
+ sequence_names[3-1] = '\0';
+ for(i = 0; i < 3; i++)
+ {
+ sequence_names[i] = malloc(30*sizeof(char));
+ }
+ get_sample_names_for_header("../tests/data/small_alignment.aln",sequence_names, 3);
+
+ for(i =0; i< 3; i++)
+ {
+ fail_unless( strcmp(expected_sequence_names[i], sequence_names[i]) ==0 );
+ }
+}
+END_TEST
+
+START_TEST (check_strip_directory_from_filename_without_directory)
+{
+ char *input_filename_without_directory = "my_file_name.aln";
+ char output_filename[30];
+ strip_directory_from_filename(input_filename_without_directory, output_filename);
+ fail_unless( strcmp(input_filename_without_directory, output_filename) ==0 );
+}
+END_TEST
+
+START_TEST (check_strip_directory_from_filename_with_directory)
+{
+ char *input_filename_without_directory = "/some/directory/name/my_file_name.aln";
+ char output_filename[30];
+ strip_directory_from_filename(input_filename_without_directory, output_filename);
+ fail_unless( strcmp("my_file_name.aln", output_filename) ==0 );
+}
+END_TEST
+
+Suite * snp_sites_suite (void)
+{
+ Suite *s = suite_create ("Creating_SNP_Sites");
+
+ TCase *tc_alignment_file = tcase_create ("alignment_file");
+ tcase_add_test (tc_alignment_file, valid_genome_length);
+ tcase_add_test (tc_alignment_file, valid_genome_length_with_multiple_lines_per_sequence);
+ tcase_add_test (tc_alignment_file, valid_number_of_sequences_in_file);
+ tcase_add_test (tc_alignment_file, valid_number_of_sequences_in_file_with_multiple_lines_per_sequence);
+ tcase_add_test (tc_alignment_file, valid_initial_reference_sequence);
+ tcase_add_test (tc_alignment_file, number_of_snps_detected_small);
+ tcase_add_test (tc_alignment_file, number_of_snps_detected);
+ tcase_add_test (tc_alignment_file, sample_names_from_alignment_file);
+ tcase_add_test (tc_alignment_file, check_strip_directory_from_filename_without_directory);
+ tcase_add_test (tc_alignment_file, check_strip_directory_from_filename_with_directory);
+ suite_add_tcase (s, tc_alignment_file);
+
+ TCase *tc_snp_sites = tcase_create ("snp_sites");
+ tcase_add_test (tc_snp_sites, valid_alignment_with_one_line_per_sequence);
+ tcase_add_test (tc_snp_sites, valid_alignment_with_multiple_lines_per_sequence);
+ tcase_add_test (tc_snp_sites, valid_alignment_with_one_line_per_sequence_gzipped);
+ tcase_add_test (tc_snp_sites, valid_alignment_with_n_as_gap);
+ tcase_add_test (tc_snp_sites, valid_with_only_aln_file_output);
+ tcase_add_test (tc_snp_sites, valid_with_only_aln_file_output_with_custom_name);
+ tcase_add_test (tc_snp_sites, valid_with_all_outputted_with_custom_name);
+ tcase_add_test (tc_snp_sites, valid_with_only_aln_file_output_default);
+ tcase_add_test (tc_snp_sites, valid_with_phylip_outputted_with_custom_name);
+ tcase_add_exit_test(tc_snp_sites, invalid_with_uneven_file_lengths,EXIT_FAILURE);
+ remove("uneven_alignment.aln.snp_sites.aln");
+ suite_add_tcase (s, tc_snp_sites);
+
+ return s;
+}
+
+
+
diff --git a/tests/check-snp-sites.h b/tests/check-snp-sites.h
new file mode 100644
index 0000000..9318cfc
--- /dev/null
+++ b/tests/check-snp-sites.h
@@ -0,0 +1,27 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2013 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 2
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+#ifndef _CHECK_SNP_SITES_H_
+#define _CHECK_SNP_SITES_H_
+
+Suite * snp_sites_suite (void);
+#endif
+
+
+
diff --git a/tests/data/alignment_file_multiple_lines_per_sequence.aln b/tests/data/alignment_file_multiple_lines_per_sequence.aln
new file mode 100644
index 0000000..305ec3a
--- /dev/null
+++ b/tests/data/alignment_file_multiple_lines_per_sequence.aln
@@ -0,0 +1,226 @@
+>2956_6_1
+-------------------------CTATATAGAGATCTTTTTATTAGATCTACTAT
+TAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGCTGATAGGCATGTTTACCTGCCGCGCAGAAAGTATCGTAGCTTGAATCACCAATCGCG [...]
+CGGGCCACCGTGACCTTGCAGCTCAAGCACATCTTCACCGGTAAATGAA
+TGAGGATTGGGGAAAAACAGCGCAATGCCTTG
+>2956_6_2
+--------------------AAGATCTATATAGAGATCTTTTTATTA
+GATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGCTGATAGGCATGTTTACCTGCCGCGCAGAAAGTATCGTAGCTTGAATC [...]
+>2956_6_3
+--------------------------------------------------------------------------------------------------A--A-CATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAG-C-CCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>2956_6_4
+---------------------------------A
+GATCTTTTTATTAGATCTACTATT
+AAGGAGCAGGATCTTTGTGGATAAGTGAAAA-TGA-CAACAAGATCATGCGATTCAGAAGGATC
+AGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGCTGATAGGCATGTTTACCTGCCGCGCAGAAAGTATCGTAGCTTGAATCACCAATCGCGACCACGGCATAACGTAGTGCAGAGGTATTCGGTGGTGTATTCTGCAGAGCCTGAATAAAGGGCTG [...]
+>2956_6_5
+------------------------------------------TATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>2956_6_6
+-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATA--A-GATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_1
+----------------TATAAAGATCTATATAG
+AGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGCTGATAGGCATGTTTACCTGCCGCGCAGAAAGTA [...]
+>3002_8_2
+------------------------------------------TATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_3
+-----------------ATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAG-AG---C---GTGGATAAGTGAAAAATGATCAACAAGAT-ATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_4
+----------------------------------------------------------AAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_5
+-----------------------------------------------------------------------------------TGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAG--ACCTTGGGATCTA----------------------------------------AT--------------------ATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATC---------------------------------------------T-TTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_6
+---------------------------------------------------------TAAGGAGCAGGATCTT--------------------TCAA---G---ATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGG-ATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_7
+---------------------------------------------------------------------TCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCA----------TCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCT-------------------------------------------------------T-GT--------TGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_10
+------------------------------------------TATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGAT-A-CGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_11
+----------------------------TATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATC--AT------------CACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAA---TGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGC-TTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_1
+-------------------------CTA-ATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_12
+------ATTAAAT-TATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_2
+--------TAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_3
+----------------------------------------TTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGA---------------------------------------------------------------GCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGAT---------------------------------------------CAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAG----TTAGCAC-AA-A-CC-CCA-C--- [...]
+>4056_2_4
+--------------------AAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_5
+---------AAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGT-ATACACAGCCACCTTGGGATCTA--ACTTGTTATATGGAT-ACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_6
+----------AATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_7
+-------------------A-A-ATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAA----------CAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTT-TATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_9
+-------------ATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_10
+-----------------------ATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCA-CCACTGAT----TCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGG-ATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_11
+-------------------------------------------ATTAG--CT-------------------------------------ATG-----------------ATTCAGAAGGATCAGATCGTGTGATCA-C-AC-------------------------------------------------------------------------------------------GATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGA-AAA-CATCAATCA-----------AC------AT--------AATC-AAAAAAAA--------T-A-GCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_12
+--------------------------------------------TT-GA--T--------------------------------GA-AAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACT----------------------GTATA--TA-C---A-GA-A-TTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATC-AAAAA-------------AAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_2
+--------------TATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_3
+---------------------------ATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA--------T-A--C--CTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_4
+----------------TATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_5
+-------------------AAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACA----CCTTGGG-TCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA--------TTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_6
+------------------------------------------------------TATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTC-----------------------------GATCTGTTCAAGG----------ATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATT----------C-A------------------AGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_7
+------------------------------------TCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAA-A--------------------------------------------------ACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA--G-GG---TAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_9
+------------------------------------------------------TATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCAT-AAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_10
+--------------------AAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCA----------------GTGAAAAATGATCAACAAGATCATG-G-TTC-GAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAA---------------------TCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_11
+-----------------------ATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA-------AT-AAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_1
+-----------------------------ATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAA---------TTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_12
+----------------------------TATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA------------------CTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_7
+------------TATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA------CAT-AAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_8
+--------------------AAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA----G--ATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_9
+---------------------------------------------TAGATCTACTATTAAGGAGC--GATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA----G----------GCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_10
+-------TTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATC------------------AGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAA-----------------------TCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_1
+---------AAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAG-GCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_12
+-------------------------------AGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA--------TTAA-CCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_2
+----------------------------------GA-CTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTG-TCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA--------TT-AGCC-CTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_3
+----------AA-ATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA----------AAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_4
+--------------------AAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAA--------------GCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_6
+-------------------AAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAA------------------GCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_8
+---------------------AGA-CTATATAGAGATCTTTTTATTAGATCTAC--------------------------------------------A--ATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAA-----------------------CTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCG-TTG-GCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_9
+---------------------------ATATAGAGAT-TT-TTATTAGATCTACTATTAAGGAGCAGGATCTTTGT-----------AA-TG--CAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAA----------------------CATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_11
+--------TAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_12
+-------------------------CTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_2
+-------TTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_3
+-------------ATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_5
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_6
+--------------------------------------TTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_7
+-------------------------------------CTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAA---C---T--TATACACAGC---CTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_8
+-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AC-TTGGGATCTAAAACTTGTTATATGGATAACTATAG--------------AA---------------CATG----TTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_9
+AG-GTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_11
+--------------------------------------------TTAGATCTA----TAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAA-A-----------------------ATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_12
+----------------------------------GATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGC-----A---GGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_2
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_3
+-----------------ATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_4
+--------------------------------GAGATCTTTTTATTAGAT-TA---------AGCAGGATC-----------------------------------GCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_7
+------------------------------------------TATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_8
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_9
+---GTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_3_11
+---------------ATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGA-CAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_3_1
+----------------TATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_3_6
+----------AATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_3_7
+------------------------------------------------ATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_3_8
+----------------------------------GATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_1
+-GGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_2
+--GGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_3
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_4
+-GGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_5
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_6
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_7
+--GGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_9
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_10
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_1
+--GGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_2
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_3
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_4
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_5
+-GGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_6
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_7
+--GGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_8
+---GTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_9
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_10
+-GGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_1
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_2
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_3
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_4
+---GTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_5
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_6
+---GTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_7
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_8
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_9
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_1
+--GGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_2
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_3
+-GGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_5
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_6
+--------TAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_8
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_9
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>Vibrio_parahaemolyticus
+------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ [...]
+>Vibrio_vulnificus
+------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ [...]
diff --git a/tests/data/alignment_file_one_line_per_sequence.aln b/tests/data/alignment_file_one_line_per_sequence.aln
new file mode 100644
index 0000000..6667e29
--- /dev/null
+++ b/tests/data/alignment_file_one_line_per_sequence.aln
@@ -0,0 +1,218 @@
+>2956_6_1
+-------------------------CTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>2956_6_2
+--------------------AAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>2956_6_3
+--------------------------------------------------------------------------------------------------A--A-CATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAG-C-CCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>2956_6_4
+---------------------------------AGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAA-TGA-CAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>2956_6_5
+------------------------------------------TATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>2956_6_6
+-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATA--A-GATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_1
+----------------TATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_2
+------------------------------------------TATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_3
+-----------------ATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAG-AG---C---GTGGATAAGTGAAAAATGATCAACAAGAT-ATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_4
+----------------------------------------------------------AAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_5
+-----------------------------------------------------------------------------------TGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAG--ACCTTGGGATCTA----------------------------------------AT--------------------ATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATC---------------------------------------------T-TTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_6
+---------------------------------------------------------TAAGGAGCAGGATCTT--------------------TCAA---G---ATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGG-ATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_7
+---------------------------------------------------------------------TCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCA----------TCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCT-------------------------------------------------------T-GT--------TGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_10
+------------------------------------------TATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGAT-A-CGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_11
+----------------------------TATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATC--AT------------CACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAA---TGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGC-TTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_1
+-------------------------CTA-ATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_12
+------ATTAAAT-TATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_2
+--------TAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_3
+----------------------------------------TTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGA---------------------------------------------------------------GCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGAT---------------------------------------------CAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAG----TTAGCAC-AA-A-CC-CCA-C--- [...]
+>4056_2_4
+--------------------AAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_5
+---------AAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGT-ATACACAGCCACCTTGGGATCTA--ACTTGTTATATGGAT-ACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_6
+----------AATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_7
+-------------------A-A-ATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAA----------CAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTT-TATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_9
+-------------ATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_10
+-----------------------ATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCA-CCACTGAT----TCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGG-ATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_11
+-------------------------------------------ATTAG--CT-------------------------------------ATG-----------------ATTCAGAAGGATCAGATCGTGTGATCA-C-AC-------------------------------------------------------------------------------------------GATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGA-AAA-CATCAATCA-----------AC------AT--------AATC-AAAAAAAA--------T-A-GCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_12
+--------------------------------------------TT-GA--T--------------------------------GA-AAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACT----------------------GTATA--TA-C---A-GA-A-TTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATC-AAAAA-------------AAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_2
+--------------TATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_3
+---------------------------ATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA--------T-A--C--CTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_4
+----------------TATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_5
+-------------------AAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACA----CCTTGGG-TCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA--------TTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_6
+------------------------------------------------------TATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTC-----------------------------GATCTGTTCAAGG----------ATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATT----------C-A------------------AGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_7
+------------------------------------TCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAA-A--------------------------------------------------ACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA--G-GG---TAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_9
+------------------------------------------------------TATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCAT-AAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_10
+--------------------AAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCA----------------GTGAAAAATGATCAACAAGATCATG-G-TTC-GAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAA---------------------TCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_11
+-----------------------ATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA-------AT-AAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_1
+-----------------------------ATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAA---------TTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_12
+----------------------------TATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA------------------CTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_7
+------------TATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA------CAT-AAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_8
+--------------------AAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA----G--ATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_9
+---------------------------------------------TAGATCTACTATTAAGGAGC--GATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA----G----------GCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_10
+-------TTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATC------------------AGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAA-----------------------TCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_1
+---------AAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAG-GCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_12
+-------------------------------AGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA--------TTAA-CCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_2
+----------------------------------GA-CTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTG-TCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA--------TT-AGCC-CTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_3
+----------AA-ATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAA----------AAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_4
+--------------------AAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAA--------------GCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_6
+-------------------AAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAA------------------GCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_8
+---------------------AGA-CTATATAGAGATCTTTTTATTAGATCTAC--------------------------------------------A--ATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAA-----------------------CTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCG-TTG-GCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_9
+---------------------------ATATAGAGAT-TT-TTATTAGATCTACTATTAAGGAGCAGGATCTTTGT-----------AA-TG--CAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAA----------------------CATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_11
+--------TAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_12
+-------------------------CTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_2
+-------TTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_3
+-------------ATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_5
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_6
+--------------------------------------TTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_7
+-------------------------------------CTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAA---C---T--TATACACAGC---CTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_8
+-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------AC-TTGGGATCTAAAACTTGTTATATGGATAACTATAG--------------AA---------------CATG----TTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_9
+AG-GTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_11
+--------------------------------------------TTAGATCTA----TAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAA-A-----------------------ATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_12
+----------------------------------GATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGC-----A---GGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_2
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_3
+-----------------ATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_4
+--------------------------------GAGATCTTTTTATTAGAT-TA---------AGCAGGATC-----------------------------------GCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_7
+------------------------------------------TATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_8
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_9
+---GTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_3_11
+---------------ATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGA-CAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_3_1
+----------------TATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_3_6
+----------AATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_3_7
+------------------------------------------------ATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_3_8
+----------------------------------GATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_1
+-GGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_2
+--GGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_3
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_4
+-GGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_5
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_6
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_7
+--GGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_9
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_10
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_1
+--GGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_2
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_3
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_4
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_5
+-GGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_6
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_7
+--GGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_8
+---GTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_9
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_10
+-GGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_1
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_2
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_3
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_4
+---GTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_5
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_6
+---GTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_7
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_8
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_9
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_1
+--GGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_2
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_3
+-GGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_5
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_6
+--------TAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_8
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_9
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>Vibrio_parahaemolyticus
+------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ [...]
+>Vibrio_vulnificus
+------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ [...]
\ No newline at end of file
diff --git a/tests/data/alignment_file_one_line_per_sequence.aln.gz b/tests/data/alignment_file_one_line_per_sequence.aln.gz
new file mode 100644
index 0000000..a043f50
Binary files /dev/null and b/tests/data/alignment_file_one_line_per_sequence.aln.gz differ
diff --git a/tests/data/alignment_file_one_line_per_sequence.aln.phylip b/tests/data/alignment_file_one_line_per_sequence.aln.phylip
new file mode 100644
index 0000000..1171765
--- /dev/null
+++ b/tests/data/alignment_file_one_line_per_sequence.aln.phylip
@@ -0,0 +1,110 @@
+109 5
+2956_6_1 AACGC
+2956_6_2 AACGC
+2956_6_3 AACGC
+2956_6_4 AACGC
+2956_6_5 AACGC
+2956_6_6 AACGC
+3002_8_1 GACGC
+3002_8_2 GACGC
+3002_8_3 AACGC
+3002_8_4 AACGC
+3002_8_5 -ACGC
+3002_8_6 GACGC
+3002_8_7 AACGC
+4056_2_10 GACGC
+4056_2_11 AACGC
+4056_2_1 AACGC
+4056_2_12 AACGC
+4056_2_2 AACGC
+4056_2_3 -ACGC
+4056_2_4 GACGT
+4056_2_5 AACGC
+4056_2_6 AACGC
+4056_2_7 AACGC
+4056_2_9 AACGC
+4056_6_10 AACGC
+4056_6_11 AACGC
+4056_6_12 AACGC
+4056_6_2 AACGC
+4056_6_3 AACGC
+4056_6_4 AACGC
+4056_6_5 AACGC
+4056_6_6 AACGC
+4056_6_7 AACGC
+4056_6_9 AACGC
+4056_7_10 AACGC
+4056_7_11 AACGC
+4056_7_1 AACGC
+4056_7_12 AACGC
+4056_7_7 AACGC
+4056_7_8 AACGC
+4056_7_9 AACGC
+4056_8_10 AACGC
+4056_8_1 AACGC
+4056_8_12 AACGC
+4056_8_2 AACGC
+4056_8_3 AACGC
+4056_8_4 AACGC
+4056_8_6 GACGC
+4056_8_8 AACGC
+4056_8_9 AACGC
+4075_3_11 AACGC
+4075_3_12 AACGC
+4075_3_2 AACGC
+4075_3_3 AACGC
+4075_3_5 AACGC
+4075_3_6 AACGC
+4075_3_7 AACGC
+4075_3_8 AACGC
+4075_3_9 AACGC
+4370_2_11 AACGC
+4370_2_12 AACGC
+4370_2_2 AACGC
+4370_2_3 AACGC
+4370_2_4 AACGC
+4370_2_7 AACGC
+4370_2_8 AACGC
+4370_2_9 AACGC
+4370_3_11 AACGC
+4370_3_1 AACGC
+4370_3_6 AACGC
+4370_3_7 AACGC
+4370_3_8 AACGC
+5174_5_1 GACGC
+5174_5_2 AACGC
+5174_5_3 AACGC
+5174_5_4 AACGC
+5174_5_5 AACGC
+5174_5_6 AACGC
+5174_5_7 GACGC
+5174_5_9 GACGC
+5174_6_10 GACGC
+5174_6_1 AACGC
+5174_6_2 AACGC
+5174_6_3 AACGC
+5174_6_4 AACGC
+5174_6_5 AACGC
+5174_6_6 AACGC
+5174_6_7 AACGC
+5174_6_8 AACGC
+5174_6_9 AACGC
+5174_7_10 AACGC
+5174_7_1 GACGC
+5174_7_2 AACGC
+5174_7_3 AACGC
+5174_7_4 AACGC
+5174_7_5 AACGC
+5174_7_6 AACGC
+5174_7_7 AACGC
+5174_7_8 AACGC
+5174_7_9 AACGC
+5174_8_1 AACGC
+5174_8_2 AACGC
+5174_8_3 AACGC
+5174_8_5 GACGC
+5174_8_6 AACGC
+5174_8_8 AACGC
+5174_8_9 AACGC
+Vibrio_parahaemolyticus -----
+Vibrio_vulnificus -GGA-
diff --git a/tests/data/alignment_file_one_line_per_sequence.aln.snp_sites.aln b/tests/data/alignment_file_one_line_per_sequence.aln.snp_sites.aln
new file mode 100644
index 0000000..ceb62b2
--- /dev/null
+++ b/tests/data/alignment_file_one_line_per_sequence.aln.snp_sites.aln
@@ -0,0 +1,218 @@
+>2956_6_1
+AACGC
+>2956_6_2
+AACGC
+>2956_6_3
+AACGC
+>2956_6_4
+AACGC
+>2956_6_5
+AACGC
+>2956_6_6
+AACGC
+>3002_8_1
+GACGC
+>3002_8_2
+GACGC
+>3002_8_3
+AACGC
+>3002_8_4
+AACGC
+>3002_8_5
+-ACGC
+>3002_8_6
+GACGC
+>3002_8_7
+AACGC
+>4056_2_10
+GACGC
+>4056_2_11
+AACGC
+>4056_2_1
+AACGC
+>4056_2_12
+AACGC
+>4056_2_2
+AACGC
+>4056_2_3
+-ACGC
+>4056_2_4
+GACGT
+>4056_2_5
+AACGC
+>4056_2_6
+AACGC
+>4056_2_7
+AACGC
+>4056_2_9
+AACGC
+>4056_6_10
+AACGC
+>4056_6_11
+AACGC
+>4056_6_12
+AACGC
+>4056_6_2
+AACGC
+>4056_6_3
+AACGC
+>4056_6_4
+AACGC
+>4056_6_5
+AACGC
+>4056_6_6
+AACGC
+>4056_6_7
+AACGC
+>4056_6_9
+AACGC
+>4056_7_10
+AACGC
+>4056_7_11
+AACGC
+>4056_7_1
+AACGC
+>4056_7_12
+AACGC
+>4056_7_7
+AACGC
+>4056_7_8
+AACGC
+>4056_7_9
+AACGC
+>4056_8_10
+AACGC
+>4056_8_1
+AACGC
+>4056_8_12
+AACGC
+>4056_8_2
+AACGC
+>4056_8_3
+AACGC
+>4056_8_4
+AACGC
+>4056_8_6
+GACGC
+>4056_8_8
+AACGC
+>4056_8_9
+AACGC
+>4075_3_11
+AACGC
+>4075_3_12
+AACGC
+>4075_3_2
+AACGC
+>4075_3_3
+AACGC
+>4075_3_5
+AACGC
+>4075_3_6
+AACGC
+>4075_3_7
+AACGC
+>4075_3_8
+AACGC
+>4075_3_9
+AACGC
+>4370_2_11
+AACGC
+>4370_2_12
+AACGC
+>4370_2_2
+AACGC
+>4370_2_3
+AACGC
+>4370_2_4
+AACGC
+>4370_2_7
+AACGC
+>4370_2_8
+AACGC
+>4370_2_9
+AACGC
+>4370_3_11
+AACGC
+>4370_3_1
+AACGC
+>4370_3_6
+AACGC
+>4370_3_7
+AACGC
+>4370_3_8
+AACGC
+>5174_5_1
+GACGC
+>5174_5_2
+AACGC
+>5174_5_3
+AACGC
+>5174_5_4
+AACGC
+>5174_5_5
+AACGC
+>5174_5_6
+AACGC
+>5174_5_7
+GACGC
+>5174_5_9
+GACGC
+>5174_6_10
+GACGC
+>5174_6_1
+AACGC
+>5174_6_2
+AACGC
+>5174_6_3
+AACGC
+>5174_6_4
+AACGC
+>5174_6_5
+AACGC
+>5174_6_6
+AACGC
+>5174_6_7
+AACGC
+>5174_6_8
+AACGC
+>5174_6_9
+AACGC
+>5174_7_10
+AACGC
+>5174_7_1
+GACGC
+>5174_7_2
+AACGC
+>5174_7_3
+AACGC
+>5174_7_4
+AACGC
+>5174_7_5
+AACGC
+>5174_7_6
+AACGC
+>5174_7_7
+AACGC
+>5174_7_8
+AACGC
+>5174_7_9
+AACGC
+>5174_8_1
+AACGC
+>5174_8_2
+AACGC
+>5174_8_3
+AACGC
+>5174_8_5
+GACGC
+>5174_8_6
+AACGC
+>5174_8_8
+AACGC
+>5174_8_9
+AACGC
+>Vibrio_parahaemolyticus
+-----
+>Vibrio_vulnificus
+-GGA-
diff --git a/tests/data/alignment_file_one_line_per_sequence.aln.vcf b/tests/data/alignment_file_one_line_per_sequence.aln.vcf
new file mode 100644
index 0000000..590e89a
--- /dev/null
+++ b/tests/data/alignment_file_one_line_per_sequence.aln.vcf
@@ -0,0 +1,8 @@
+##fileformat=VCFv4.1
+##INFO=<ID=AB,Number=1,Type=String,Description="Alt Base">
+#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT 2956_6_1 2956_6_2 2956_6_3 2956_6_4 2956_6_5 2956_6_6 3002_8_1 3002_8_2 3002_8_3 3002_8_4 3002_8_5 3002_8_6 3002_8_7 4056_2_10 4056_2_11 4056_2_1 4056_2_12 4056_2_2 4056_2_3 4056_2_4 4056_2_5 4056_2_6 4056_2_7 4056_2_9 4056_6_10 4056_6_11 4056_6_12 4056_6_2 4056_6_3 4056_6_4 4056_6_5 4056_6_6 4056_6_7 4056_6_9 4056_7_10 4056_7_11 4056_7_1 4056_7_12 4056_7_7 4056_7_8 4056_7_9 4056_8_10 4056_8_1 4056_8_12 4056_8_2 4056_8_3 4056_8_4 4056_8_6 405 [...]
+1 825 . A G . . AB . . . . . . . G G . . . G . G . . . . . G . . . . . . . . . . . . . . . . . . . . . . . . . . . G . . . . . . . . . . . . . . . . . . . . . . . . G . . . . . G G G . . . . . . . . . . G . . . . . . . . . . . G . . . . .
+1 1278 . A G . . AB . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . G
+1 1281 . C G . . AB . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . G
+1 1299 . G A . . AB . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . A
+1 1435 . C T . . AB . . . . . . . . . . . . . . . . . . . . T . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
diff --git a/tests/data/alignment_file_with_n.aln b/tests/data/alignment_file_with_n.aln
new file mode 100644
index 0000000..b812338
--- /dev/null
+++ b/tests/data/alignment_file_with_n.aln
@@ -0,0 +1,218 @@
+>2956_6_1
+NNNNNNNNNNNNNNNNNNNNNNNNNCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>2956_6_2
+NNNNNNNNNNNNNNNNNNNNAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>2956_6_3
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNANNANCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGNCNCCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>2956_6_4
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAANTGANCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>2956_6_5
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>2956_6_6
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATANNANGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_1
+NNNNNNNNNNNNNNNNTATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_2
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_3
+NNNNNNNNNNNNNNNNNATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGNAGNNNCNNNGTGGATAAGTGAAAAATGATCAACAAGATNATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_4
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_5
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGNNACCTTGGGATCTANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATNNNNNNNNNNNNNNNNNNNNATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTNTTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_6
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAAGGAGCAGGATCTTNNNNNNNNNNNNNNNNNNNNTCAANNNGNNNATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGNATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>3002_8_7
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCANNNNNNNNNNTCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTNGTNNNNNNNNTGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_10
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATNANCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_11
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNTATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCNNATNNNNNNNNNNNNCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAANNNTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCNTTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_1
+NNNNNNNNNNNNNNNNNNNNNNNNNCTANATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_12
+NNNNNNATTAAATNTATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_2
+NNNNNNNNTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_3
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGNNNNTTAGCACNAANANCCNCCANCNNN [...]
+>4056_2_4
+NNNNNNNNNNNNNNNNNNNNAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_5
+NNNNNNNNNAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTNATACACAGCCACCTTGGGATCTANNACTTGTTATATGGATNACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_6
+NNNNNNNNNNAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_7
+NNNNNNNNNNNNNNNNNNNANANATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAANNNNNNNNNNCAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTNTATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_2_9
+NNNNNNNNNNNNNATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_10
+NNNNNNNNNNNNNNNNNNNNNNNATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCANCCACTGATNNNNTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGNATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_11
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATTAGNNCTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATGNNNNNNNNNNNNNNNNNATTCAGAAGGATCAGATCGTGTGATCANCNACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGANAAANCATCAATCANNNNNNNNNNNACNNNNNNATNNNNNNNNAATCNAAAAAAAANNNNNNNNTNANGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_12
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTNGANNTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGANAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTNNNNNNNNNNNNNNNNNNNNNNGTATANNTANCNNNANGANANTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCNAAAAANNNNNNNNNNNNNAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_2
+NNNNNNNNNNNNNNTATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_3
+NNNNNNNNNNNNNNNNNNNNNNNNNNNATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAANNNNNNNNTNANNCNNCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_4
+NNNNNNNNNNNNNNNNTATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_5
+NNNNNNNNNNNNNNNNNNNAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACANNNNCCTTGGGNTCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAANNNNNNNNTTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_6
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGATCTGTTCAAGGNNNNNNNNNNATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTNNNNNNNNNNCNANNNNNNNNNNNNNNNNNNAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_7
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAANANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAANNGNGGNNNTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_6_9
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATNAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_10
+NNNNNNNNNNNNNNNNNNNNAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCANNNNNNNNNNNNNNNNGTGAAAAATGATCAACAAGATCATGNGNTTCNGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAANNNNNNNNNNNNNNNNNNNNNTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_11
+NNNNNNNNNNNNNNNNNNNNNNNATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAANNNNNNNATNAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_1
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAANNNNNNNNNTTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_12
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNTATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAANNNNNNNNNNNNNNNNNNCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_7
+NNNNNNNNNNNNTATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAANNNNNNCATNAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_8
+NNNNNNNNNNNNNNNNNNNNAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAANNNNGNNATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_7_9
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAGATCTACTATTAAGGAGCNNGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAANNNNGNNNNNNNNNNGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_10
+NNNNNNNTTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCNNNNNNNNNNNNNNNNNNAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAANNNNNNNNNNNNNNNNNNNNNNNTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_1
+NNNNNNNNNAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGNGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_12
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAANNNNNNNNTTAANCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_2
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGANCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGNTCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAANNNNNNNNTTNAGCCNCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_3
+NNNNNNNNNNAANATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAANNNNNNNNNNAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_4
+NNNNNNNNNNNNNNNNNNNNAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAANNNNNNNNNNNNNNGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_6
+NNNNNNNNNNNNNNNNNNNAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAANNNNNNNNNNNNNNNNNNGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_8
+NNNNNNNNNNNNNNNNNNNNNAGANCTATATAGAGATCTTTTTATTAGATCTACNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNANNATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAANNNNNNNNNNNNNNNNNNNNNNNCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGNTTGNGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4056_8_9
+NNNNNNNNNNNNNNNNNNNNNNNNNNNATATAGAGATNTTNTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTNNNNNNNNNNNAANTGNNCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAANNNNNNNNNNNNNNNNNNNNNNCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_11
+NNNNNNNNTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_12
+NNNNNNNNNNNNNNNNNNNNNNNNNCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_2
+NNNNNNNTTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_3
+NNNNNNNNNNNNNATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_5
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_6
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_7
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAANNNCNNNTNNTATACACAGCNNNCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_8
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACNTTGGGATCTAAAACTTGTTATATGGATAACTATAGNNNNNNNNNNNNNNAANNNNNNNNNNNNNNNCATGNNNNTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4075_3_9
+AGNGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_11
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTAGATCTANNNNTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAANANNNNNNNNNNNNNNNNNNNNNNNATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_12
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCNNNNNANNNGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_2
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_3
+NNNNNNNNNNNNNNNNNATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_4
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGAGATCTTTTTATTAGATNTANNNNNNNNNAGCAGGATCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_7
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_8
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_2_9
+NNNGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_3_11
+NNNNNNNNNNNNNNNATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGANCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_3_1
+NNNNNNNNNNNNNNNNTATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_3_6
+NNNNNNNNNNAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_3_7
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>4370_3_8
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_1
+NGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_2
+NNGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_3
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_4
+NGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_5
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_6
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_7
+NNGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_5_9
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_10
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_1
+NNGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_2
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_3
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_4
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_5
+NGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_6
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_7
+NNGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_8
+NNNGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_6_9
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_10
+NGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_1
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_2
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_3
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_4
+NNNGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_5
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_6
+NNNGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_7
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_8
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_7_9
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_1
+NNGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_2
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_3
+NGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_5
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_6
+NNNNNNNNTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_8
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>5174_8_9
+AGGGTCATTAAATATATATAAAGATCTATATAGAGATCTTTTTATTAGATCTACTATTAAGGAGCAGGATCTTTGTGGATAAGTGAAAAATGATCAACAAGATCATGCGATTCAGAAGGATCAGATCGTGTGATCAACCACTGATCTGTTCAAGGATTAGCTGGGATCAAAAACCTATGTTATACACAGCCACCTTGGGATCTAAAACTTGTTATATGGATAACTATAGGAAGATCACCGGATAATCGTATAGTTATCCACATGAGATTTGATTGAAAAAGCATCAATCAATTTTTTCACTACCGTTAAATTTATCCACAATCCAAAAAAAAGAGCGGCATTAAGCCGCTCTGCATGGAATAGGTCATTATTTAGAAGCGATTGATGACGCGTTTGAGCCAAGCTTCAGCGGCATCTTCAGGCACTGGGTGCTCTTGTACATCGATGGTAAAGCAGTTGGCCAGAGGTTTAGCACCAATATCCCCCAGCAGC [...]
+>Vibrio_parahaemolyticus
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN [...]
+>Vibrio_vulnificus
+NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN [...]
\ No newline at end of file
diff --git a/tests/data/alignment_file_with_n.aln.phylip b/tests/data/alignment_file_with_n.aln.phylip
new file mode 100644
index 0000000..eee05c8
--- /dev/null
+++ b/tests/data/alignment_file_with_n.aln.phylip
@@ -0,0 +1,110 @@
+109 5
+2956_6_1 AACGC
+2956_6_2 AACGC
+2956_6_3 AACGC
+2956_6_4 AACGC
+2956_6_5 AACGC
+2956_6_6 AACGC
+3002_8_1 GACGC
+3002_8_2 GACGC
+3002_8_3 AACGC
+3002_8_4 AACGC
+3002_8_5 NACGC
+3002_8_6 GACGC
+3002_8_7 AACGC
+4056_2_10 GACGC
+4056_2_11 AACGC
+4056_2_1 AACGC
+4056_2_12 AACGC
+4056_2_2 AACGC
+4056_2_3 NACGC
+4056_2_4 GACGT
+4056_2_5 AACGC
+4056_2_6 AACGC
+4056_2_7 AACGC
+4056_2_9 AACGC
+4056_6_10 AACGC
+4056_6_11 AACGC
+4056_6_12 AACGC
+4056_6_2 AACGC
+4056_6_3 AACGC
+4056_6_4 AACGC
+4056_6_5 AACGC
+4056_6_6 AACGC
+4056_6_7 AACGC
+4056_6_9 AACGC
+4056_7_10 AACGC
+4056_7_11 AACGC
+4056_7_1 AACGC
+4056_7_12 AACGC
+4056_7_7 AACGC
+4056_7_8 AACGC
+4056_7_9 AACGC
+4056_8_10 AACGC
+4056_8_1 AACGC
+4056_8_12 AACGC
+4056_8_2 AACGC
+4056_8_3 AACGC
+4056_8_4 AACGC
+4056_8_6 GACGC
+4056_8_8 AACGC
+4056_8_9 AACGC
+4075_3_11 AACGC
+4075_3_12 AACGC
+4075_3_2 AACGC
+4075_3_3 AACGC
+4075_3_5 AACGC
+4075_3_6 AACGC
+4075_3_7 AACGC
+4075_3_8 AACGC
+4075_3_9 AACGC
+4370_2_11 AACGC
+4370_2_12 AACGC
+4370_2_2 AACGC
+4370_2_3 AACGC
+4370_2_4 AACGC
+4370_2_7 AACGC
+4370_2_8 AACGC
+4370_2_9 AACGC
+4370_3_11 AACGC
+4370_3_1 AACGC
+4370_3_6 AACGC
+4370_3_7 AACGC
+4370_3_8 AACGC
+5174_5_1 GACGC
+5174_5_2 AACGC
+5174_5_3 AACGC
+5174_5_4 AACGC
+5174_5_5 AACGC
+5174_5_6 AACGC
+5174_5_7 GACGC
+5174_5_9 GACGC
+5174_6_10 GACGC
+5174_6_1 AACGC
+5174_6_2 AACGC
+5174_6_3 AACGC
+5174_6_4 AACGC
+5174_6_5 AACGC
+5174_6_6 AACGC
+5174_6_7 AACGC
+5174_6_8 AACGC
+5174_6_9 AACGC
+5174_7_10 AACGC
+5174_7_1 GACGC
+5174_7_2 AACGC
+5174_7_3 AACGC
+5174_7_4 AACGC
+5174_7_5 AACGC
+5174_7_6 AACGC
+5174_7_7 AACGC
+5174_7_8 AACGC
+5174_7_9 AACGC
+5174_8_1 AACGC
+5174_8_2 AACGC
+5174_8_3 AACGC
+5174_8_5 GACGC
+5174_8_6 AACGC
+5174_8_8 AACGC
+5174_8_9 AACGC
+Vibrio_parahaemolyticus NNNNN
+Vibrio_vulnificus NGGAN
diff --git a/tests/data/alignment_file_with_n.aln.snp_sites.aln b/tests/data/alignment_file_with_n.aln.snp_sites.aln
new file mode 100644
index 0000000..b09dee7
--- /dev/null
+++ b/tests/data/alignment_file_with_n.aln.snp_sites.aln
@@ -0,0 +1,218 @@
+>2956_6_1
+AACGC
+>2956_6_2
+AACGC
+>2956_6_3
+AACGC
+>2956_6_4
+AACGC
+>2956_6_5
+AACGC
+>2956_6_6
+AACGC
+>3002_8_1
+GACGC
+>3002_8_2
+GACGC
+>3002_8_3
+AACGC
+>3002_8_4
+AACGC
+>3002_8_5
+NACGC
+>3002_8_6
+GACGC
+>3002_8_7
+AACGC
+>4056_2_10
+GACGC
+>4056_2_11
+AACGC
+>4056_2_1
+AACGC
+>4056_2_12
+AACGC
+>4056_2_2
+AACGC
+>4056_2_3
+NACGC
+>4056_2_4
+GACGT
+>4056_2_5
+AACGC
+>4056_2_6
+AACGC
+>4056_2_7
+AACGC
+>4056_2_9
+AACGC
+>4056_6_10
+AACGC
+>4056_6_11
+AACGC
+>4056_6_12
+AACGC
+>4056_6_2
+AACGC
+>4056_6_3
+AACGC
+>4056_6_4
+AACGC
+>4056_6_5
+AACGC
+>4056_6_6
+AACGC
+>4056_6_7
+AACGC
+>4056_6_9
+AACGC
+>4056_7_10
+AACGC
+>4056_7_11
+AACGC
+>4056_7_1
+AACGC
+>4056_7_12
+AACGC
+>4056_7_7
+AACGC
+>4056_7_8
+AACGC
+>4056_7_9
+AACGC
+>4056_8_10
+AACGC
+>4056_8_1
+AACGC
+>4056_8_12
+AACGC
+>4056_8_2
+AACGC
+>4056_8_3
+AACGC
+>4056_8_4
+AACGC
+>4056_8_6
+GACGC
+>4056_8_8
+AACGC
+>4056_8_9
+AACGC
+>4075_3_11
+AACGC
+>4075_3_12
+AACGC
+>4075_3_2
+AACGC
+>4075_3_3
+AACGC
+>4075_3_5
+AACGC
+>4075_3_6
+AACGC
+>4075_3_7
+AACGC
+>4075_3_8
+AACGC
+>4075_3_9
+AACGC
+>4370_2_11
+AACGC
+>4370_2_12
+AACGC
+>4370_2_2
+AACGC
+>4370_2_3
+AACGC
+>4370_2_4
+AACGC
+>4370_2_7
+AACGC
+>4370_2_8
+AACGC
+>4370_2_9
+AACGC
+>4370_3_11
+AACGC
+>4370_3_1
+AACGC
+>4370_3_6
+AACGC
+>4370_3_7
+AACGC
+>4370_3_8
+AACGC
+>5174_5_1
+GACGC
+>5174_5_2
+AACGC
+>5174_5_3
+AACGC
+>5174_5_4
+AACGC
+>5174_5_5
+AACGC
+>5174_5_6
+AACGC
+>5174_5_7
+GACGC
+>5174_5_9
+GACGC
+>5174_6_10
+GACGC
+>5174_6_1
+AACGC
+>5174_6_2
+AACGC
+>5174_6_3
+AACGC
+>5174_6_4
+AACGC
+>5174_6_5
+AACGC
+>5174_6_6
+AACGC
+>5174_6_7
+AACGC
+>5174_6_8
+AACGC
+>5174_6_9
+AACGC
+>5174_7_10
+AACGC
+>5174_7_1
+GACGC
+>5174_7_2
+AACGC
+>5174_7_3
+AACGC
+>5174_7_4
+AACGC
+>5174_7_5
+AACGC
+>5174_7_6
+AACGC
+>5174_7_7
+AACGC
+>5174_7_8
+AACGC
+>5174_7_9
+AACGC
+>5174_8_1
+AACGC
+>5174_8_2
+AACGC
+>5174_8_3
+AACGC
+>5174_8_5
+GACGC
+>5174_8_6
+AACGC
+>5174_8_8
+AACGC
+>5174_8_9
+AACGC
+>Vibrio_parahaemolyticus
+NNNNN
+>Vibrio_vulnificus
+NGGAN
diff --git a/tests/data/alignment_file_with_n.aln.vcf b/tests/data/alignment_file_with_n.aln.vcf
new file mode 100644
index 0000000..590e89a
--- /dev/null
+++ b/tests/data/alignment_file_with_n.aln.vcf
@@ -0,0 +1,8 @@
+##fileformat=VCFv4.1
+##INFO=<ID=AB,Number=1,Type=String,Description="Alt Base">
+#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT 2956_6_1 2956_6_2 2956_6_3 2956_6_4 2956_6_5 2956_6_6 3002_8_1 3002_8_2 3002_8_3 3002_8_4 3002_8_5 3002_8_6 3002_8_7 4056_2_10 4056_2_11 4056_2_1 4056_2_12 4056_2_2 4056_2_3 4056_2_4 4056_2_5 4056_2_6 4056_2_7 4056_2_9 4056_6_10 4056_6_11 4056_6_12 4056_6_2 4056_6_3 4056_6_4 4056_6_5 4056_6_6 4056_6_7 4056_6_9 4056_7_10 4056_7_11 4056_7_1 4056_7_12 4056_7_7 4056_7_8 4056_7_9 4056_8_10 4056_8_1 4056_8_12 4056_8_2 4056_8_3 4056_8_4 4056_8_6 405 [...]
+1 825 . A G . . AB . . . . . . . G G . . . G . G . . . . . G . . . . . . . . . . . . . . . . . . . . . . . . . . . G . . . . . . . . . . . . . . . . . . . . . . . . G . . . . . G G G . . . . . . . . . . G . . . . . . . . . . . G . . . . .
+1 1278 . A G . . AB . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . G
+1 1281 . C G . . AB . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . G
+1 1299 . G A . . AB . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . A
+1 1435 . C T . . AB . . . . . . . . . . . . . . . . . . . . T . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
diff --git a/tests/data/small_alignment.aln b/tests/data/small_alignment.aln
new file mode 100644
index 0000000..9d45247
--- /dev/null
+++ b/tests/data/small_alignment.aln
@@ -0,0 +1,6 @@
+>reference_sequence
+aaccggtt
+>comparison_sequence
+AACCGGTT
+>another_comparison_sequence
+AACCGCTT
\ No newline at end of file
diff --git a/tests/data/uneven_alignment.aln b/tests/data/uneven_alignment.aln
new file mode 100644
index 0000000..eda9819
--- /dev/null
+++ b/tests/data/uneven_alignment.aln
@@ -0,0 +1,6 @@
+>reference_sequence
+aaccggtt
+>Uneven_number_of_bases
+AACCGGTTT
+>another_comparison_sequence
+AACCGCTT
\ No newline at end of file
diff --git a/tests/helper-methods.c b/tests/helper-methods.c
new file mode 100644
index 0000000..8790235
--- /dev/null
+++ b/tests/helper-methods.c
@@ -0,0 +1,67 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2013 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 2
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+#include <stdio.h>
+#include <stdlib.h>
+#include <string.h>
+#include <sys/stat.h>
+#include <fcntl.h>
+#include <unistd.h>
+#include <errno.h>
+#include "helper-methods.h"
+
+
+int compare_files(char expected_output_filename[],char actual_output_filename[] )
+{
+ FILE *expected_output_fh;
+ FILE *actual_output_fh;
+
+ char *expected_buffer;
+ char *actual_buffer;
+ long numbytes;
+
+ expected_output_fh = fopen(expected_output_filename, "r");
+ actual_output_fh = fopen(actual_output_filename, "r");
+
+ fseek(expected_output_fh, 0L, SEEK_END);
+ numbytes = ftell(expected_output_fh);
+ fseek(expected_output_fh, 0L, SEEK_SET);
+ expected_buffer = (char*)calloc(numbytes, sizeof(char));
+ fread(expected_buffer, sizeof(char), numbytes, expected_output_fh);
+ fclose(expected_output_fh);
+
+ fseek(actual_output_fh, 0L, SEEK_END);
+ numbytes = ftell(actual_output_fh);
+ fseek(actual_output_fh, 0L, SEEK_SET);
+ actual_buffer = (char*)calloc(numbytes, sizeof(char));
+ fread(actual_buffer, sizeof(char), numbytes, actual_output_fh);
+ fclose(actual_output_fh);
+
+ if(strcmp(expected_buffer,actual_buffer) == 0)
+ {
+ free(expected_buffer);
+ free(actual_buffer);
+ return 1;
+ }
+
+ free(expected_buffer);
+ free(actual_buffer);
+
+ return 0;
+}
diff --git a/tests/helper-methods.h b/tests/helper-methods.h
new file mode 100644
index 0000000..1abba95
--- /dev/null
+++ b/tests/helper-methods.h
@@ -0,0 +1,25 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2013 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 2
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+#ifndef _HELPER_METHODS_H_
+#define _HELPER_METHODS_H_
+
+int compare_files(char expected_output_filename[],char actual_output_filename[] );
+#endif
+
diff --git a/tests/run-all-tests.c b/tests/run-all-tests.c
new file mode 100644
index 0000000..43292ec
--- /dev/null
+++ b/tests/run-all-tests.c
@@ -0,0 +1,37 @@
+/*
+ * Wellcome Trust Sanger Institute
+ * Copyright (C) 2013 Wellcome Trust Sanger Institute
+ *
+ * This program is free software; you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation; either version 2
+ * of the License, or (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program; if not, write to the Free Software
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
+ */
+
+#include <stdio.h>
+#include <stdlib.h>
+#include <string.h>
+#include <check.h>
+#include "check-snp-sites.h"
+
+
+
+int main (void)
+{
+ int number_failed;
+ Suite *s = snp_sites_suite ();
+ SRunner *sr = srunner_create (s);
+ srunner_run_all (sr, CK_NORMAL);
+ number_failed = srunner_ntests_failed (sr);
+ srunner_free (sr);
+ return (number_failed == 0) ? EXIT_SUCCESS : EXIT_FAILURE;
+}
--
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