[med-svn] [seer] 06/08: New upstream version 1.1.4
Andreas Tille
tille at debian.org
Thu Sep 28 12:53:06 UTC 2017
This is an automated email from the git hooks/post-receive script.
tille pushed a commit to branch master
in repository seer.
commit b0ad52913ab55f062609de3344653d54c71bd0d7
Author: Andreas Tille <tille at debian.org>
Date: Thu Sep 28 15:58:32 2017 +0200
New upstream version 1.1.4
---
.gitignore | 1 -
.gitmodules | 3 +
.travis.yml | 6 +-
README.md | 24 ++-
scripts/R_mds.pl | 48 ++++-
scripts/blastn_to_phandango.pl | 88 ++++++++
scripts/mapping_to_phandango.pl | 43 ++--
src/Makefile | 6 +-
src/filterCmdLine.cpp | 2 +-
src/kmds.hpp | 2 +-
src/kmdsMain.cpp | 3 +-
src/kmer.cpp | 16 +-
src/kmer.hpp | 7 +-
src/linearFunction.cpp | 4 +-
src/logitFunction.cpp | 35 +--
src/seer.hpp | 22 +-
src/seerBasicFilter.cpp | 33 +++
src/seerBinaryAssoc.cpp | 42 +++-
src/seerContinuousAssoc.cpp | 49 +++--
src/seerFilter.cpp | 79 -------
src/seerIO.cpp | 34 +--
src/seerMain.cpp | 42 ++--
src/{seerChiFilter.cpp => seerStats.cpp} | 111 +++++++++-
src/seercommon.hpp | 11 +-
src/significant_kmer.cpp | 24 ++-
src/significant_kmer.hpp | 7 +-
test/filter_in.txt | 350 +++++++++++++++---------------
test/map_in.txt | 4 +-
test/test1.e.txt | 5 +-
test/test1.o.txt | 2 +-
test/test2.e.txt | 5 +-
test/test2.o.txt | 350 +++++++++++++++---------------
test/test3.e.txt | 5 +-
test/test3.o.txt | 192 ++++++++---------
test/test4.e.txt | 7 +-
test/test4.o.txt | 113 ++++++++--
test/test5.e.txt | 5 +-
test/test5.o.txt | 358 +++++++++++++++----------------
test/test6.e.txt | 5 +-
test/test6.o.txt | 350 +++++++++++++++---------------
test/test7.o.txt | 306 +++++++++++++-------------
41 files changed, 1572 insertions(+), 1227 deletions(-)
diff --git a/.gitignore b/.gitignore
index a73db35..feaa367 100644
--- a/.gitignore
+++ b/.gitignore
@@ -41,4 +41,3 @@ filter_seer
armadillo-*
mlpack-1.0.*
boost_1_*
-gzstream
diff --git a/.gitmodules b/.gitmodules
index ead5808..49ab835 100644
--- a/.gitmodules
+++ b/.gitmodules
@@ -1,3 +1,6 @@
[submodule "dlib"]
path = dlib
url = https://github.com/davisking/dlib
+[submodule "gzstream"]
+ path = gzstream
+ url = https://github.com/kanedo/gzstream
diff --git a/.travis.yml b/.travis.yml
index 390a520..0a44ce6 100644
--- a/.travis.yml
+++ b/.travis.yml
@@ -11,8 +11,8 @@ install:
- wget http://www.cs.unc.edu/Research/compgeom/gzstream/gzstream.tgz
- tar xzf gzstream.tgz
- pushd gzstream && make && popd
- - wget http://sourceforge.net/projects/arma/files/armadillo-6.700.6.tar.gz
- - tar xzf armadillo-6.700.6.tar.gz
- - pushd armadillo-6.700.6 && CXX=/usr/bin/g++-4.9 cmake . && make && sudo make install && popd
+ - wget https://www.dropbox.com/s/n0zxh86y5nk65km/armadillo-6.100.1.tar.gz?dl=0
+ - mv 'armadillo-6.100.1.tar.gz?dl=0' armadillo-6.100.1.tar.gz && tar xf armadillo-6.100.1.tar.gz
+ - pushd armadillo-6.100.1 && CXX=/usr/bin/g++-4.9 cmake . && make && sudo make install && popd
script: CXX=/usr/bin/g++-4.9 make CPPFLAGS="-I../gzstream -I../dlib -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1 -D NO_HDF5=1" SEER_LDLIBS="-L../gzstream -lgzstream -lz -larmadillo -lboost_program_options -llapack -lblas -lpthread" && make test
diff --git a/README.md b/README.md
index 3c4d704..efb4ae3 100644
--- a/README.md
+++ b/README.md
@@ -3,19 +3,18 @@
Sequence element enrichment analysis. This document contains
installation instuctions. Usage can be found on the [wiki](https://github.com/johnlees/seer/wiki/Usage), and more information in the [paper](http://www.nature.com/articles/ncomms12797).
-Installation
-==============
-###Use a pre-compiled release
+## Installation
+### Use a pre-compiled release
Head to the [release](https://github.com/johnlees/seer/releases) page and download and unpack the tarball. If you have the dependencies installed use the dynamic version, otherwise use the static version (tested on Ubuntu only; static_all should work on other 64-bit Linux platforms).
-###Use on a virtual machine
+### Use on a virtual machine
We have a virtual machine, containing SEER and other useful bioinformatics programs, which is available at
ftp://ftp.sanger.ac.uk/pub/pathogens/pathogens-vm/pathogens-vm.latest.ova
and can be imported as an appliance in [VirtualBox](https://www.virtualbox.org/).
-###Compile source code
+### Compile source code
First clone the repository
@@ -32,8 +31,7 @@ Currently tested on Linux only, installation should proceed as
Full installation instructions are available <a href="#installation-on-ubuntubiolinux">below</a>
-Dependencies
---------------
+## Dependencies
seer currently depends on
- gzstream <http://www.cs.unc.edu/Research/compgeom/gzstream/>
@@ -49,7 +47,7 @@ You will also require
You probably already have boost, HDF5 and dlib (as long as you did clone --recursive).
-###Installation on Ubuntu/biolinux
+### Installation on Ubuntu/biolinux
Running the following commands will install seer
@@ -75,7 +73,12 @@ Running the following commands will install seer
cd ..
cd src && make CXX=/usr/bin/g++-4.9
-###General installation instructions
+If you are having trouble finding hdf5 (e.g. on Ubuntu 16.04) try
+running:
+
+ make CPPFLAGS="-I../gzstream -I../dlib -I/usr/include/hdf5/serial -D DLIB_NO_GUI_SUPPORT=1 -D DLIB_USE_BLAS=1 -D DLIB_USE_LAPACK=1"
+
+### General installation instructions
**gzstream**
@@ -142,6 +145,5 @@ do by running
make CXX=g++-4.9
-Usage, interpretation of results, and troubleshooting
-=============
+## Usage, interpretation of results, and troubleshooting
See the [wiki](https://github.com/johnlees/seer/wiki/Usage)
diff --git a/scripts/R_mds.pl b/scripts/R_mds.pl
index 93782e3..4f811ae 100755
--- a/scripts/R_mds.pl
+++ b/scripts/R_mds.pl
@@ -6,20 +6,23 @@ use warnings;
use Getopt::Long;
my $usage_message = <<USAGE;
-Usage: ./R_mds.pl -k <filtered_kmers.txt> -p <pheno_file>
+Usage: ./R_mds.pl -d <distances.csv> -p <pheno_file>
Projects distance matrix into lower number of dimensions
Requires R and rhdf5 to be installed, see github wiki for more details
+NB ensure order in dist matrix and pheno file is the same!
+
Options
Required
- -d, --dist Distance matrix output by kmds
+ -d, --dist Distance matrix output by kmds/mash
-p, --pheno Phenotype file used by seer
Optional
-o, --output Output prefix (default 'all_structure')
- --pc Number of dimensions to project into (default 3)
+ --pc Number of dimensions to project into (default 10)
+ --no_hdf5 Write output as csv, use if seer compiled with 'NO_HDF5'
-R R executable (default 'which R')
-h, --help Displays this message
@@ -32,10 +35,11 @@ my $tmp_file_name = "mds_tmp.Rscript";
#****************************************************************************************#
#* gets input parameters
-my ($distance_file, $pheno, $output_prefix, $dimensions, $R_exec, $help);
+my ($distance_file, $pheno, $output_prefix, $dimensions, ,$no_hdf5, $R_exec, $help);
GetOptions ("dist|d=s" => \$distance_file,
"pheno|p=s" => \$pheno,
"output|o=s" => \$output_prefix,
+ "no_hdf5" => \$no_hdf5,
"pc=i" => \$dimensions,
"R=s" => \$R_exec,
"help|h" => \$help
@@ -50,7 +54,7 @@ else
# Set defaults
if (!defined($dimensions))
{
- $dimensions = 3;
+ $dimensions = 10;
}
if (!defined($R_exec))
{
@@ -71,16 +75,14 @@ else
chomp $line_in;
my @fields = split(/\t/, $line_in);
- push(@samples, $fields[1]);
+ push(@samples, $fields[0]);
}
- my @samples_out = sort @samples;
-
open(DIST, $distance_file) || die("Could not open distance file $distance_file: $!\n");
my $dist_line = <DIST>;
my @dist_cols = split(",", $dist_line);
- if(scalar(@dist_cols) != scalar(@samples_out))
+ if(scalar(@dist_cols) != scalar(@samples))
{
die("Number of samples in $pheno does not match those in $distance_file\n");
}
@@ -99,7 +101,7 @@ else
close DIST;
open(SAMPLES, ">$output_prefix.samples") || die("Could not write to $output_prefix.samples\n");
- foreach my $sample (@samples_out)
+ foreach my $sample (@samples)
{
print SAMPLES $sample . "\n";
}
@@ -108,7 +110,30 @@ else
#****************************************************************************************#
#* Rscript *#
#****************************************************************************************#
- my $Rscript = <<RSCRIPT;
+ my $Rscript;
+ if ($no_hdf5)
+ {
+ $Rscript = <<RSCRIPT;
+distances <- read.csv("$distance_file", header=FALSE, stringsAsFactors=FALSE)
+projection <- cmdscale(distances, k = $dimensions, eig = T)
+covariates <- projection[["points"]]
+
+for (i in 1:$dimensions)
+{
+ covariates[,i] <- covariates[,i]/max(abs(covariates[,i]))
+}
+
+write.table(covariates, file="$output_prefix", quote=F, sep=",", row.names=F, col.names=F)
+
+pdf("scree_plot.pdf")
+plot(projection[[2]][1:30], type='l', xlab="Dimensions", ylab="Eigenvalue", main="Scree plot")
+dev.off()
+RSCRIPT
+
+ }
+ else
+ {
+ $Rscript = <<RSCRIPT;
library(rhdf5)
distances <- read.csv("$distance_file", header=FALSE, stringsAsFactors=FALSE)
projection <- cmdscale(distances, k = $dimensions, eig = T)
@@ -127,6 +152,7 @@ pdf("scree_plot.pdf")
plot(projection[[2]][1:30], type='l', xlab="Dimensions", ylab="Eigenvalue", main="Scree plot")
dev.off()
RSCRIPT
+ }
open(RSCRIPT, ">$tmp_file_name") || die("Could not open $tmp_file_name: $!\n");
print RSCRIPT $Rscript;
diff --git a/scripts/blastn_to_phandango.pl b/scripts/blastn_to_phandango.pl
new file mode 100755
index 0000000..9a7270d
--- /dev/null
+++ b/scripts/blastn_to_phandango.pl
@@ -0,0 +1,88 @@
+#!/usr/bin/perl -w
+
+use strict;
+use warnings;
+
+use Getopt::Long;
+
+my $usage_message = <<USAGE;
+Usage: ./mapping_to_phandango.pl -b <blast_file> -a <fastlmm_kmers> > phandango.plot
+
+Creates a plot file for visualisation in phandango
+
+ Options
+
+ Required
+ -b, --blast blast results
+ -a, --assoc fastlmm results
+
+ -h, --help Displays this message
+
+USAGE
+
+#****************************************************************************************#
+#* Main *#
+#****************************************************************************************#
+
+#* gets input parameters
+my ($assoc_file, $blast_file, $help);
+GetOptions ("assoc|a=s" => \$assoc_file,
+ "blast|b=s" => \$blast_file,
+ "help|h" => \$help
+ ) or die($usage_message);
+
+if (defined($help) || !defined($assoc_file) || !defined($blast_file))
+{
+ print $usage_message;
+}
+else
+{
+ open(ASSOC, $assoc_file) || die("Could not open assoc file $assoc_file: $!\n");
+
+ my @pvals;
+ while (my $assoc_line = <ASSOC>)
+ {
+ chomp $assoc_line;
+
+ my (@assoc_fields) = split("\t", $assoc_line);
+ push(@pvals, -log($assoc_fields[5])/log(10));
+ }
+
+ close ASSOC;
+
+ open(BLAST, $blast_file) || die("Could not open blast file $blast_file: $!\n");
+
+ my %points;
+ while (my $blast_line = <BLAST>)
+ {
+ chomp $blast_line;
+
+ my (@blast_fields) = split("\t", $blast_line);
+
+ # Get position, check for reverse complement
+ my $start = $blast_fields[8];
+ my $end = $blast_fields[9];
+
+ if ($start > $end)
+ {
+ my $tmp = $start;
+ $start = $end;
+ $end = $tmp;
+ }
+
+ $points{$blast_fields[0]}{pval} = $pvals[$blast_fields[0]-1];
+ $points{$blast_fields[0]}{start} = $start;
+ $points{$blast_fields[0]}{pos} = "$start..$end";
+ }
+
+ # Sort and print the output
+ my @keys = sort { $points{$a}{start} <=> $points{$b}{start} } keys(%points);
+ foreach my $kmer (@keys)
+ {
+ print join("\t", "26", ".", $points{$kmer}{pos}, $points{$kmer}{pval}, "0") . "\n";
+ }
+}
+
+exit(0);
+
+
diff --git a/scripts/mapping_to_phandango.pl b/scripts/mapping_to_phandango.pl
index a339559..1307eb4 100755
--- a/scripts/mapping_to_phandango.pl
+++ b/scripts/mapping_to_phandango.pl
@@ -18,6 +18,7 @@ Creates a plot file for visualisation in phandango
Optional
-m, --map Minimum mapping quality
+ --print_kmer Also print k-mer sequence in output
-h, --help Displays this message
@@ -28,8 +29,9 @@ USAGE
#****************************************************************************************#
#* gets input parameters
-my ($kmer_file, $sam_file, $min_qual, $help);
+my ($kmer_file, $print_kmer, $sam_file, $min_qual, $help);
GetOptions ("kmers|k=s" => \$kmer_file,
+ "print_kmer" => \$print_kmer,
"sam|s=s" => \$sam_file,
"map|m=s" => \$min_qual,
"help|h" => \$help
@@ -50,6 +52,12 @@ else
open(KMERS, $kmer_file) || die("Could not open kmer file $kmer_file: $!\n");
my $header = <KMERS>;
+ my @header_fields = split("\t", $header);
+ my $lrt = 0;
+ if ($header_fields[4] eq "lrt_p_val")
+ {
+ $lrt = 1;
+ }
my %points;
while (my $sam_line = <SAM>)
@@ -60,18 +68,9 @@ else
{
my ($kmer_id, $flag, $chrom, $pos, $map_qual, $cigar, $mate_chrom, $mate_pos, $insert_size, $sequence, $quality, @optional) = split("\t", $sam_line);
- # Get position, check for reverse complement
- my ($end, $start);
- if ($flag & 16)
- {
- $end = $pos;
- $start = $pos - length($sequence) + 1;
- }
- else
- {
- $start = $pos;
- $end = $pos + length($sequence) - 1;
- }
+ # Get position
+ my $start = $pos;
+ my $end = $pos + length($sequence) - 1;
my $kmer = <KMERS>;
chomp $kmer;
@@ -80,6 +79,15 @@ else
if ($map_qual > $min_qual && !($flag & 4))
{
my ($kmer, $maf, $unadj, $adj, @other) = split("\t", $kmer);
+ if ($lrt)
+ {
+ $adj = $other[0];
+ }
+
+ if ($kmer ne $sequence)
+ {
+ print STDERR "WARNING: line $kmer_id sequence mismatch. Are input files in same order?\n";
+ }
my $log_p = 386; # Exponent limit of a double
if ($adj > 0)
@@ -98,7 +106,14 @@ else
my @keys = sort { $points{$a}{start} <=> $points{$b}{start} } keys(%points);
foreach my $kmer (@keys)
{
- print join("\t", "26", ".", $points{$kmer}{pos}, $points{$kmer}{pval}, "0") . "\n";
+ if (defined($print_kmer))
+ {
+ print join("\t", "26", $kmer, $points{$kmer}{pos}, $points{$kmer}{pval}, "0") . "\n";
+ }
+ else
+ {
+ print join("\t", "26", ".", $points{$kmer}{pos}, $points{$kmer}{pval}, "0") . "\n";
+ }
}
}
diff --git a/src/Makefile b/src/Makefile
index 3cf3cc7..c89e3b0 100755
--- a/src/Makefile
+++ b/src/Makefile
@@ -12,7 +12,7 @@ BINDIR=$(PREFIX)/bin
#FILTER_LDLIBS=-L$(PREFIX)/lib -lboost_program_options -mkl
# gcc
CXXFLAGS=-Wall -O3 -std=c++11
-SEER_LDLIBS=-L../gzstream -L$(PREFIX)/lib -lhdf5 -lgzstream -lz -larmadillo -lboost_program_options -llapack -lblas -lpthread
+SEER_LDLIBS=-L../gzstream -L$(PREFIX)/lib -L/usr/local/hdf5/lib -lhdf5 -lgzstream -lz -larmadillo -lboost_program_options -llapack -lblas -lpthread
MAP_LDLIBS=-L$(PREFIX)/lib -lboost_program_options -lpthread
COMBINE_LDLIBS=-L../gzstream -L$(PREFIX)/lib -lgzstream -lz -lboost_program_options
FILTER_LDLIBS=-L$(PREFIX)/lib -lboost_program_options
@@ -40,8 +40,8 @@ PROGRAMS=seer kmds map_back combineKmers filter_seer
STATIC_PROGRAMS=seer_static kmds_static map_back_static combineKmers_static filter_seer_static
CLASSES=sample.o significant_kmer.o kmer.o covar.o
-COMMON_OBJECTS=$(CLASSES) seerCommon.o seerErr.o seerFilter.o seerIO.o seerChiFilter.o
-SEER_OBJECTS=$(COMMON_OBJECTS) seerMain.o seerCmdLine.o seerContinuousAssoc.o seerBinaryAssoc.o logitFunction.o linearFunction.o
+COMMON_OBJECTS=$(CLASSES) seerCommon.o seerErr.o seerIO.o seerBasicFilter.o
+SEER_OBJECTS=$(COMMON_OBJECTS) seerMain.o seerCmdLine.o seerStats.o seerContinuousAssoc.o seerBinaryAssoc.o logitFunction.o linearFunction.o
KMDS_OBJECTS=$(COMMON_OBJECTS) kmdsMain.o kmdsStruct.o kmdsCmdLine.o
MAP_OBJECTS=fasta.o significant_kmer.o mapMain.o mapCmdLine.o
COMBINE_OBJECTS=combineInit.o combineCmdLine.o combineKmers.o
diff --git a/src/filterCmdLine.cpp b/src/filterCmdLine.cpp
index 02ed5a4..c98cd97 100644
--- a/src/filterCmdLine.cpp
+++ b/src/filterCmdLine.cpp
@@ -61,7 +61,7 @@ int parseCommandLine (int argc, char *argv[], po::variables_map& vm)
{
// Report errors from boost library
std::cerr << "Error in command line input: " << e.what() << "\n";
- std::cerr << "Run 'combineKmers --help' for full option listing\n\n";
+ std::cerr << "Run 'filter_seer --help' for full option listing\n\n";
std::cerr << required << "\n" << other << "\n";
failed = 1;
diff --git a/src/kmds.hpp b/src/kmds.hpp
index 1bd910f..cde56fa 100644
--- a/src/kmds.hpp
+++ b/src/kmds.hpp
@@ -15,7 +15,7 @@
// Constants
// Default options
-const int pc_default = 3;
+const int pc_default = 10;
const long int size_default = 1000000;
// Structs
diff --git a/src/kmdsMain.cpp b/src/kmdsMain.cpp
index ebb693e..7de4659 100644
--- a/src/kmdsMain.cpp
+++ b/src/kmdsMain.cpp
@@ -69,7 +69,6 @@ int main (int argc, char *argv[])
}
arma::vec y = constructVecY(samples);
- int continuous_phenotype = continuousPhenotype(samples);
// Normal operation
if (!vm.count("mds_concat"))
@@ -149,7 +148,7 @@ int main (int argc, char *argv[])
// apply filters here
int passed_filters = 0;
- if (parameters.filter && passFilters(parameters, k, samples, y, continuous_phenotype, 0))
+ if (parameters.filter && passBasicFilters(parameters, k))
{
passed_filters = 1;
filtered_file << dsm_line << "\n";
diff --git a/src/kmer.cpp b/src/kmer.cpp
index a459b0c..96fa5bf 100644
--- a/src/kmer.cpp
+++ b/src/kmer.cpp
@@ -8,20 +8,20 @@
#include "kmer.hpp"
// Initialisation
-Kmer::Kmer(const std::string& sequence, const std::vector<std::string>& occurrences, const double pvalue, const double beta, const double se, const double maf)
- : Significant_kmer(sequence, occurrences, maf, kmer_chi_pvalue_default, pvalue, beta, se, kmer_comment_default), _x_set(0), _use_firth(0)
+Kmer::Kmer(const std::string& sequence, const std::vector<std::string>& occurrences, const double pvalue, const double lrt_pvalue, const double beta, const double se, const double maf, const double log_likelihood)
+ : Significant_kmer(sequence, occurrences, maf, kmer_chi_pvalue_default, pvalue, lrt_pvalue, beta, se, kmer_comment_default), _x_set(0), _log_likelihood(log_likelihood), _use_firth(0)
{
}
// Initialise without calculated information
Kmer::Kmer(const std::string& sequence, const std::vector<std::string>& occurrences)
- : Significant_kmer(sequence, occurrences, kmer_maf_default, kmer_chi_pvalue_default, kmer_pvalue_default, kmer_beta_default, kmer_se_default, kmer_comment_default), _x_set(0), _use_firth(0)
+ : Significant_kmer(sequence, occurrences, kmer_maf_default, kmer_chi_pvalue_default, kmer_pvalue_default, kmer_pvalue_default, kmer_beta_default, kmer_se_default, kmer_comment_default), _x_set(0), _log_likelihood(0), _use_firth(0)
{
}
// Initialise with default info only
Kmer::Kmer()
- : Significant_kmer(kmer_seq_default, kmer_occ_default, kmer_maf_default, kmer_chi_pvalue_default, kmer_pvalue_default, kmer_beta_default, kmer_se_default, kmer_comment_default), _x_set(0), _use_firth(0)
+ : Significant_kmer(kmer_seq_default, kmer_occ_default, kmer_maf_default, kmer_chi_pvalue_default, kmer_pvalue_default, kmer_pvalue_default, kmer_beta_default, kmer_se_default, kmer_comment_default), _x_set(0), _log_likelihood(0), _use_firth(0)
{
}
@@ -29,8 +29,8 @@ Kmer::Kmer()
std::ostream& operator<<(std::ostream &os, const Kmer& k)
{
os << std::fixed << std::setprecision(3) << k.sequence() << "\t" << k.maf()
- << "\t" << std::scientific << k.unadj() << "\t" << k.p_val() << "\t" << k.beta()
- << "\t" << k.se();
+ << "\t" << std::scientific << k.unadj() << "\t" << k.p_val() << "\t" << k.lrt_p_val()
+ << "\t" << k.beta() << "\t" << k.se();
std::vector<double> covariates = k.covar_p();
for (auto it = covariates.begin(); it != covariates.end(); ++it)
@@ -142,9 +142,9 @@ void Kmer::add_comment(const std::string& new_comment)
}
}
-int Kmer::num_occurrences() const
+size_t Kmer::num_occurrences() const
{
- int total_occurrences;
+ size_t total_occurrences;
if (_x_set)
{
total_occurrences = (int) accu(_x);
diff --git a/src/kmer.hpp b/src/kmer.hpp
index ebbbeb0..c8fbcfb 100644
--- a/src/kmer.hpp
+++ b/src/kmer.hpp
@@ -23,27 +23,30 @@ class Kmer: public Significant_kmer
{
public:
// Initialisation
- Kmer(const std::string& sequence, const std::vector<std::string>& occurrences, const double pvalue, const double beta, const double se, const double maf);
+ Kmer(const std::string& sequence, const std::vector<std::string>& occurrences, const double pvalue, const double lrt_pvalue, const double beta, const double se, const double maf, const double log_likelihood);
Kmer(const std::string& sequence, const std::vector<std::string>& occurrences); // Initialise without calculated information
Kmer(); // defaults
// nonmodifying operations
int length() const { return _word.length(); }
- int num_occurrences() const;
+ size_t num_occurrences() const;
std::string occurrence(int i) const { return _samples[i]; }
std::vector<std::string> occurrence_vector() const { return _samples; }
arma::vec get_x() const { return _x; }
int has_x() const { return _x_set; }
+ double log_likelihood() const { return _log_likelihood; }
int firth() const { return _use_firth; }
// Modifying operations
void add_comment(const std::string& new_comment); // this is defined in kmer.cpp
void add_x(const std::unordered_map<std::string,int>& sample_map, const int num_samples); // this is defined in kmer.cpp
+ void log_likelihood(const double ll) { _log_likelihood = ll; }
void firth(const int use_firth) { _use_firth = use_firth; }
private:
arma::vec _x;
int _x_set;
+ double _log_likelihood;
int _use_firth;
};
diff --git a/src/linearFunction.cpp b/src/linearFunction.cpp
index b9c837b..186f5b6 100644
--- a/src/linearFunction.cpp
+++ b/src/linearFunction.cpp
@@ -8,7 +8,7 @@
#include "linkFunction.hpp"
/**
- * Evaluate the logistic regression objective function given the estimated
+ * Evaluate the linear regression objective function given the estimated
* parameters.
*/
double LinearLikelihood::operator()(const column_vector& parameters_in)
@@ -23,7 +23,7 @@ double LinearLikelihood::operator()(const column_vector& parameters_in)
return result;
}
-// Evaluate the gradient of the logistic regression objective function.
+// Evaluate the gradient of the linear regression objective function.
column_vector LinearLikelihoodGradient::operator()(const column_vector& parameters_in)
const
{
diff --git a/src/logitFunction.cpp b/src/logitFunction.cpp
index 2ae3546..2836bc9 100644
--- a/src/logitFunction.cpp
+++ b/src/logitFunction.cpp
@@ -9,7 +9,8 @@
/**
* Evaluate the logistic regression objective function given the estimated
- * parameters.
+ * parameters. With thanks to mlpack http://mlpack.org/;
+ * http://mlpack.org/papers/mlpack2013.pdf
*/
double LogitLikelihood::operator()(const column_vector& parameters_in)
const
@@ -26,20 +27,19 @@ double LogitLikelihood::operator()(const column_vector& parameters_in)
// For the regularization, we ignore the first term, which is the intercept
// term.
- const double regularization = 0.5 * lambda *
+ double regularization = 0;
+ if (parameters.n_elem > 1 && lambda > 0)
+ {
+ regularization = 0.5 * lambda *
arma::dot(parameters.col(0).subvec(1, parameters.n_elem - 1),
parameters.col(0).subvec(1, parameters.n_elem - 1));
+ }
- // Calculate vectors of sigmoids. The intercept term is parameters(0, 0) and
- // does not need to be multiplied by any of the predictors.
- const arma::vec exponents = parameters(0) + predictors *
- parameters.col(0).subvec(1, parameters.n_elem - 1);
+ // Calculate vectors of sigmoids
+ const arma::vec exponents = predictors * parameters;
const arma::vec sigmoid = 1.0 / (1.0 + arma::exp(-exponents));
- // Assemble full objective function. Often the objective function and the
- // regularization as given are divided by the number of features, but this
- // doesn't actually affect the optimization result, so we'll just ignore those
- // terms for computational efficiency.
+ // Assemble full objective function.
double result = 0.0;
for (size_t i = 0; i < responses.n_elem; ++i)
{
@@ -61,15 +61,16 @@ column_vector LogitLikelihoodGradient::operator()(const column_vector& parameter
arma::vec gradient(parameters.n_elem);
// Regularization term.
- arma::mat regularization;
- regularization = lambda * parameters.col(0).subvec(1, parameters.n_elem - 1);
+ arma::mat regularization(parameters.n_elem,1,arma::fill::zeros);
+ if (parameters.n_elem > 1 && lambda > 0)
+ {
+ regularization.col(0).subvec(1, parameters.n_elem - 1) =
+ lambda * parameters.col(0).subvec(1, parameters.n_elem - 1);
+ }
- const arma::vec sigmoids = 1 / (1 + arma::exp(-parameters(0, 0)
- - predictors * parameters.col(0).subvec(1, parameters.n_elem - 1)));
+ const arma::vec sigmoids = 1 / (1 + arma::exp(- predictors * parameters));
- gradient[0] = arma::accu(responses - sigmoids);
- gradient.col(0).subvec(1, parameters.n_elem - 1) = predictors.t() * (responses -
- sigmoids) - regularization;
+ gradient = predictors.t() * (responses - sigmoids) - regularization;
return arma_to_dlib(gradient);
}
diff --git a/src/seer.hpp b/src/seer.hpp
index a7ed412..c9b3ace 100644
--- a/src/seer.hpp
+++ b/src/seer.hpp
@@ -27,20 +27,28 @@ const double bfgs_start_beta = 1;
int parseCommandLine (int argc, char *argv[], boost::program_options::variables_map& vm);
void printHelp(boost::program_options::options_description& help);
+// seerStats headers
+double chiTest(Kmer& k, const arma::vec& y);
+double welchTwoSamplet(const Kmer& k, const arma::vec& y);
+double nullLogLikelihood(const arma::mat& x, const arma::vec& y, const int continuous);
+double likelihoodRatioTest(Kmer& k, const double null_ll, const int continuous = 0);
+double normalPval(double testStatistic);
+
+int passStatsFilters(const cmdOptions& filterOptions, Kmer& k, const arma::vec& y, const int continuous_phenotype);
+
// seerBinaryAssoc headers
-void logisticTest(Kmer& k, const arma::vec& y);
-void logisticTest(Kmer& k, const arma::vec& y_train, const arma::mat& mds);
+void logisticTest(Kmer& k, const arma::vec& y, const double null_ll);
+void logisticTest(Kmer& k, const arma::vec& y_train, const double null_ll, const arma::mat& mds);
-void doLogit(Kmer& k, const arma::vec& y_train, const arma::mat& x_train);
+void doLogit(Kmer& k, const arma::vec& y_train, const arma::mat& x_design);
void newtonRaphson(Kmer& k, const arma::vec& y_train, const arma::mat& x_design, const bool firth = 0);
arma::mat varCovarMat(const arma::mat& x, const arma::mat& b);
arma::vec predictLogitProbs(const arma::mat& x, const arma::vec& b);
// seerContinuousAssoc headers
-void linearTest(Kmer& k, const arma::vec& y_train);
-void linearTest(Kmer& k, const arma::vec& y_train, const arma::mat& mds);
+void linearTest(Kmer& k, const arma::vec& y_train, const double null_ll);
+void linearTest(Kmer& k, const arma::vec& y_train, const double null_ll, const arma::mat& mds);
-void doLinear(Kmer& k, const arma::vec& y_train, const arma::mat& x_train);
-arma::vec predictLinearProbs(const arma::mat& x, const arma::vec& b);
+void doLinear(Kmer& k, const arma::vec& y_train, const arma::mat& x_design);
diff --git a/src/seerBasicFilter.cpp b/src/seerBasicFilter.cpp
new file mode 100644
index 0000000..fe18cde
--- /dev/null
+++ b/src/seerBasicFilter.cpp
@@ -0,0 +1,33 @@
+/*
+ * File: seerFilter.cpp
+ *
+ * Can be filtered in kmds or seer
+ * Filters kmers that won't be meaningfully associated.
+ * Saves time over performing regressions on all, and reduces false positives
+ *
+ */
+
+#include "seercommon.hpp"
+
+// k-mer length and frequency
+int passBasicFilters(const cmdOptions& filterOptions, const Kmer& k)
+{
+ int passed = 1;
+
+ // Don't test long kmers
+ if (k.length() > filterOptions.max_length)
+ {
+ passed = 0;
+ }
+
+ // Impose min words
+ // TODO may want to make this more sophisticated, make sure there are at
+ // least ten words in each category
+ if (passed && (k.num_occurrences() < filterOptions.min_words || k.num_occurrences() > filterOptions.max_words))
+ {
+ passed = 0;
+ }
+
+ return passed;
+}
+
diff --git a/src/seerBinaryAssoc.cpp b/src/seerBinaryAssoc.cpp
index b36d22a..7b9af1b 100644
--- a/src/seerBinaryAssoc.cpp
+++ b/src/seerBinaryAssoc.cpp
@@ -8,25 +8,31 @@
#include "seer.hpp"
// Logistic fit without covariates
-void logisticTest(Kmer& k, const arma::vec& y_train)
+void logisticTest(Kmer& k, const arma::vec& y_train, const double null_ll)
{
// Train classifier
- arma::mat x_train = k.get_x();
+ arma::mat x_train = arma::join_rows(arma::mat(y_train.n_rows,1,arma::fill::ones), k.get_x());
doLogit(k, y_train, x_train);
+
+ // Likelihood ratio test
+ k.lrt_p_val(likelihoodRatioTest(k, null_ll));
}
// Logistic fit with covariates
-void logisticTest(Kmer& k, const arma::vec& y_train, const arma::mat& mds)
+void logisticTest(Kmer& k, const arma::vec& y_train, const double null_ll, const arma::mat& mds)
{
// Train classifier
- arma::mat x_train = arma::join_rows(k.get_x(), mds);
+ arma::mat x_train = arma::join_rows(arma::mat(y_train.n_rows,1,arma::fill::ones), k.get_x());
+ x_train = arma::join_rows(x_train, mds);
doLogit(k, y_train, x_train);
+
+ // Likelihood ratio test
+ k.lrt_p_val(likelihoodRatioTest(k, null_ll));
}
// This uses BFGS optimisation by default. Invokes NR or Firth on error
-void doLogit(Kmer& k, const arma::vec& y_train, const arma::mat& x_train)
+void doLogit(Kmer& k, const arma::vec& y_train, const arma::mat& x_design)
{
- arma::mat x_design = join_rows(arma::mat(x_train.n_rows,1,arma::fill::ones), x_train);
column_vector starting_point(x_design.n_cols);
if (k.firth())
@@ -45,15 +51,19 @@ void doLogit(Kmer& k, const arma::vec& y_train, const arma::mat& x_train)
{
// Use BFGS optimiser in dlib to maximise likelihood function by chaging the
// b vector, which will end in starting_point
+ LogitLikelihood likelihood_fit(x_design, y_train); // store this, as it is used for computing the LRT
+
dlib::find_max(dlib::bfgs_search_strategy(),
dlib::objective_delta_stop_strategy(convergence_limit),
- LogitLikelihood(x_train, y_train), LogitLikelihoodGradient(x_train, y_train),
+ likelihood_fit, LogitLikelihoodGradient(x_design, y_train),
starting_point, -1);
- // Extract beta
+ // Extract beta and likelihood
arma::vec b_vector = dlib_to_arma(starting_point);
k.beta(b_vector(1));
+ k.log_likelihood(likelihood_fit(starting_point));
+
// Extract p-value
//
//
@@ -173,6 +183,7 @@ void newtonRaphson(Kmer& k, const arma::vec& y_train, const arma::mat& x_design,
arma::vec b1 = b0 + var_covar_mat * U;
parameter_iterations.push_back(b1);
+
if (std::abs(b1(1) - b0(1)) < convergence_limit)
{
break;
@@ -197,7 +208,20 @@ void newtonRaphson(Kmer& k, const arma::vec& y_train, const arma::mat& x_design,
}
else if (!failed)
{
- k.beta(parameter_iterations.back()(1));
+ // Add beta and log-likelihood
+ column_vector converged_beta = arma_to_dlib(parameter_iterations.back());
+
+ LogitLikelihood likelihood_fit(x_design, y_train);
+ if (k.firth())
+ {
+ k.log_likelihood(likelihood_fit(converged_beta) + 0.5*log(det(inv_covar(var_covar_mat))));
+ }
+ else
+ {
+ k.log_likelihood(likelihood_fit(converged_beta));
+ }
+
+ k.beta(converged_beta(1));
double se = pow(var_covar_mat(1,1), 0.5);
k.standard_error(se);
diff --git a/src/seerContinuousAssoc.cpp b/src/seerContinuousAssoc.cpp
index e3ac469..679cbac 100644
--- a/src/seerContinuousAssoc.cpp
+++ b/src/seerContinuousAssoc.cpp
@@ -8,28 +8,37 @@
#include "seer.hpp"
// Linear fit without covariates
-void linearTest(Kmer& k, const arma::vec& y_train)
+void linearTest(Kmer& k, const arma::vec& y_train, const double null_ll)
{
// Train classifier
- arma::mat x_train = k.get_x();
+ arma::mat x_train = join_rows(arma::mat(y_train.n_rows,1,arma::fill::ones), k.get_x());
doLinear(k, y_train, x_train);
+
+ // Likelihood ratio test
+ k.lrt_p_val(k.p_val());
}
// Linear fit with covariates
-void linearTest(Kmer& k, const arma::vec& y_train, const arma::mat& mds)
+void linearTest(Kmer& k, const arma::vec& y_train, const double null_ll, const arma::mat& mds)
{
// Train classifier
- arma::mat x_train = arma::join_rows(k.get_x(), mds);
+ arma::mat x_train = join_rows(arma::mat(y_train.n_rows,1,arma::fill::ones), k.get_x());
+ x_train = join_rows(x_train, mds);
doLinear(k, y_train, x_train);
+
+ // Likelihood ratio test
+ k.lrt_p_val(k.p_val());
}
// Run linear fit
-void doLinear(Kmer& k, const arma::vec& y_train, const arma::mat& x_train)
+void doLinear(Kmer& k, const arma::vec& y_train, const arma::mat& x_design)
{
- // Set up design matrix
- arma::mat x_design = join_rows(arma::mat(x_train.n_rows,1,arma::fill::ones), x_train);
+ // To store gradient
arma::vec b;
+ // store this, used later for the LRT
+ LinearLikelihood likelihood_fit(x_design, y_train);
+
try
{
// A starting point for the optimiser
@@ -44,12 +53,11 @@ void doLinear(Kmer& k, const arma::vec& y_train, const arma::mat& x_train)
// b vector, which will end in starting_point
dlib::find_min(dlib::bfgs_search_strategy(),
dlib::objective_delta_stop_strategy(convergence_limit),
- LinearLikelihood(x_design, y_train), LinearLikelihoodGradient(x_design, y_train),
+ likelihood_fit, LinearLikelihoodGradient(x_design, y_train),
starting_point, -1);
- // Extract beta
+ // Extract beta and likelihood
b = dlib_to_arma(starting_point);
-
}
catch (std::exception& e)
{
@@ -68,18 +76,23 @@ void doLinear(Kmer& k, const arma::vec& y_train, const arma::mat& x_train)
arma::solve(b, R, Q.t() * y_train);
}
+ // Extract p-values
+ double SSE = 2*likelihood_fit(arma_to_dlib(b));
+ double MSE = SSE / (x_design.n_rows - 2);
+
+ // For LRT test
+ k.log_likelihood(SSE);
+
+ // Can end here for null-ll
k.beta(b(1));
- // Extract p-value
- //
+ // Wald test
// W = B_1 / SE(B_1) ~ N(0,1)
//
// SE(B_1) = MSE * (X'X)^-1
// MSE = sum(Y_i-Y'_i)^2 / n-2
//
- double MSE = accu(square(y_train - predictLinearProbs(x_design, b))) / (x_train.n_rows - 2);
arma::mat var_covar_mat = inv_covar(x_design.t()*x_design);
-
double se = pow((var_covar_mat(1,1) * MSE), 0.5);
k.standard_error(se);
@@ -101,11 +114,3 @@ void doLinear(Kmer& k, const arma::vec& y_train, const arma::mat& x_train)
}
}
-// returns y' = bx
-arma::vec predictLinearProbs(const arma::mat& x, const arma::vec& b)
-{
- const arma::vec y = x * b;
-
- return y;
-}
-
diff --git a/src/seerFilter.cpp b/src/seerFilter.cpp
deleted file mode 100644
index c8aa488..0000000
--- a/src/seerFilter.cpp
+++ /dev/null
@@ -1,79 +0,0 @@
-/*
- * File: seerFilter.cpp
- *
- * Filters kmers that won't be meaningfully associated.
- * Saves time over performing regressions on all, and reduces false positives
- *
- */
-
-#include "seercommon.hpp"
-
-// Wrapper to all filter functions
-int passFilters(const cmdOptions& filterOptions, Kmer& k, const std::vector<Sample>& samples, const arma::vec& y, const int continuous_phenotype, const bool do_stats)
-{
- int pass = 0;
-
- if (passBasicFilters(k, filterOptions.max_length, filterOptions.min_words, filterOptions.max_words))
- {
- // Don't bother with this if not running stats tests
- pass = 1;
-
- if (do_stats)
- {
- try // Some chi^2 tests may diverge - proceed anyway for now
- {
- pass = passStatsFilters(k, y, filterOptions.chi_cutoff, continuous_phenotype);
- }
- catch (std::exception& e)
- {
- std::cerr << "kmer " + k.sequence() + " failed chisq test with error: " + e.what() + "\n";
- pass = 1;
- }
- }
- }
-
- return pass;
-}
-
-int passBasicFilters(const Kmer& k, const int max_length, const int min_words, const int max_words)
-{
- int passed = 1;
-
- // Don't test long kmers
- if (k.length() > max_length)
- {
- passed = 0;
- }
-
- // Impose min words
- // TODO may want to make this more sophisticated, make sure there are at
- // least ten words in each category
- if (passed && (k.num_occurrences() < min_words || k.num_occurrences() > max_words))
- {
- passed = 0;
- }
-
- return passed;
-}
-
-int passStatsFilters(Kmer& k, const arma::vec& y, const double chi_cutoff, const int continuous_phenotype)
-{
- int passed = 1;
-
- if (continuous_phenotype)
- {
- k.unadj_p_val(welchTwoSamplet(k, y));
- }
- else
- {
- k.unadj_p_val(chiTest(k, y));
- }
-
- if (k.unadj() > chi_cutoff)
- {
- passed = 0;
- }
-
- return passed;
-}
-
diff --git a/src/seerIO.cpp b/src/seerIO.cpp
index 7a5dac2..abbc440 100644
--- a/src/seerIO.cpp
+++ b/src/seerIO.cpp
@@ -138,6 +138,7 @@ arma::mat readHDF5(const std::string& file_name)
arma::mat readMDS(const std::string& file_name, const std::vector<Sample>& sample_names)
{
+ std::map<std::string,unsigned int> mds_idx;
arma::mat MDS = readHDF5(file_name);
// Check that the sample names match up
@@ -148,30 +149,39 @@ arma::mat readMDS(const std::string& file_name, const std::vector<Sample>& sampl
if (samples_in)
{
arma::uvec keep_indices(sample_names.size());
- unsigned int sample_row = 0;
unsigned int file_row = 0;
+ // Read in sample file to get MDS row order
while (samples_in)
{
std::string sample_name;
samples_in >> sample_name;
-
- // Must be ordered, and lines in sample_names be a subset of what
- // is in the file. Otherwise a non-compatible mds will be returned
- // which will throw
- if (sample_name == sample_names.at(sample_row).iid())
+ if (samples_in)
{
- keep_indices(sample_row) = file_row;
- if (++sample_row >= sample_names.size())
- {
- break;
- }
+ mds_idx[sample_name] = file_row;
}
++file_row;
}
+ // Get MDS rows (using sample file read above) in same sorted order as
+ // sample vector
+ unsigned int sample_row = 0;
+ for (auto it = sample_names.begin(); it != sample_names.end(); ++it)
+ {
+ auto find_it = mds_idx.find(it->iid());
+ if (find_it == mds_idx.end())
+ {
+ throw std::runtime_error("Could not find sample " + it->iid() + " in the pheno file");
+ }
+ else
+ {
+ keep_indices(sample_row) = find_it->second;
+ }
+ sample_row++;
+ }
+
// Only keep the rows where the pheno file has data
- if (sample_row == sample_names.size())
+ if (mds_idx.size() >= sample_names.size())
{
MDS = MDS.rows(keep_indices);
}
diff --git a/src/seerMain.cpp b/src/seerMain.cpp
index 29b0cd1..fffeae4 100644
--- a/src/seerMain.cpp
+++ b/src/seerMain.cpp
@@ -89,23 +89,34 @@ int main (int argc, char *argv[])
// Disambiguate overloaded logistic functions by the type of parameter they
// take
- void (*mdsLogitFunc)(Kmer&, const arma::vec&, const arma::mat&) = &logisticTest;
- void (*logitFunc)(Kmer&, const arma::vec&) = &logisticTest;
+ void (*mdsLogitFunc)(Kmer&, const arma::vec&, const double, const arma::mat&) = &logisticTest;
+ void (*logitFunc)(Kmer&, const arma::vec&, const double) = &logisticTest;
- void (*mdsLinearFunc)(Kmer&, const arma::vec&, const arma::mat&) = &linearTest;
- void (*linearFunc)(Kmer&, const arma::vec&) = &linearTest;
+ void (*mdsLinearFunc)(Kmer&, const arma::vec&, const double, const arma::mat&) = &linearTest;
+ void (*linearFunc)(Kmer&, const arma::vec&, const double) = &linearTest;
// Error check command line options
cmdOptions parameters = verifyCommandLine(vm, samples);
+ // calculate the null log-likelihood
+ Kmer null_kmer;
+ arma::mat x(y.n_rows, 1, arma::fill::ones);
+ if (use_mds)
+ {
+ x = join_rows(x, mds);
+ }
+
+ double null_ll = nullLogLikelihood(x, y, continuous_phenotype);
+
// Open the dsm kmer ifstream, and read through the whole thing
igzstream kmer_file;
openDsmFile(kmer_file, parameters.kmers);
// Write a header
+ std::string header = "sequence\tmaf\tchisq_p_val\twald_p_val\tlrt_p_val\tbeta\tse";
if (use_mds)
{
- std::cout << "sequence\tmaf\tunadj_p_val\tp_val\tbeta\tse";
+ std::cout << header;
for (unsigned int i = 1; i <= mds.n_cols; ++i)
{
std::cout << "\tcovar" << i << "_p";
@@ -114,7 +125,7 @@ int main (int argc, char *argv[])
}
else
{
- std::cout << "sequence\tmaf\tunadj_p_val\tp_val\tbeta\tse\tcomments";
+ std::cout << header << "\tcomments";
}
if (parameters.print_samples)
{
@@ -124,6 +135,7 @@ int main (int argc, char *argv[])
long int input_line = 0;
long int tested_kmers = 0;
+ long int significant_kmers = 0;
while (kmer_file)
{
// Parse a set of dsm lines
@@ -146,7 +158,7 @@ int main (int argc, char *argv[])
kmer_lines.push_back(k);
tested_kmers++;
}
- else if (passFilters(parameters, k, samples, y, continuous_phenotype))
+ else if (passBasicFilters(parameters, k) && passStatsFilters(parameters, k, y, continuous_phenotype))
{
#ifdef SEER_DEBUG
std::cerr << "kmer " + k.sequence() + " seems significant\n";
@@ -170,22 +182,22 @@ int main (int argc, char *argv[])
{
if (continuous_phenotype)
{
- threads.push_back(std::thread(mdsLinearFunc, std::ref(kmer_lines[i]), std::cref(y), std::cref(mds)));
+ threads.push_back(std::thread(mdsLinearFunc, std::ref(kmer_lines[i]), std::cref(y), null_ll, std::cref(mds)));
}
else
{
- threads.push_back(std::thread(mdsLogitFunc, std::ref(kmer_lines[i]), std::cref(y), std::cref(mds)));
+ threads.push_back(std::thread(mdsLogitFunc, std::ref(kmer_lines[i]), std::cref(y), null_ll, std::cref(mds)));
}
}
else
{
if (continuous_phenotype)
{
- threads.push_back(std::thread(linearFunc, std::ref(kmer_lines[i]), std::cref(y)));
+ threads.push_back(std::thread(linearFunc, std::ref(kmer_lines[i]), std::cref(y), null_ll));
}
else
{
- threads.push_back(std::thread(logitFunc, std::ref(kmer_lines[i]), std::cref(y)));
+ threads.push_back(std::thread(logitFunc, std::ref(kmer_lines[i]), std::cref(y), null_ll));
}
}
}
@@ -196,8 +208,9 @@ int main (int argc, char *argv[])
threads[i].join();
// Print in order when all threads complete
- if (kmer_lines[i].p_val() < parameters.log_cutoff)
+ if (kmer_lines[i].p_val() < parameters.log_cutoff || kmer_lines[i].lrt_p_val() < parameters.log_cutoff)
{
+ significant_kmers++;
// Caclculate chisq value if not already done so in filtering
if (kmer_lines[i].unadj() == kmer_chi_pvalue_default)
{
@@ -231,9 +244,10 @@ int main (int argc, char *argv[])
// ...to here
}
- std::cerr << "Read " << input_line << " total k-mers. Of these:\n";
- std::cerr << "\tFiltered " << input_line - tested_kmers << " k-mers\n";
+ std::cerr << "Read " << input_line - 1 << " total k-mers. Of these:\n";
+ std::cerr << "\tPre-filtered " << input_line - tested_kmers - 1 << " k-mers\n";
std::cerr << "\tTested " << tested_kmers << " k-mers\n";
+ std::cerr << "\tPrinted " << significant_kmers << " k-mers\n";
std::cerr << "Done.\n";
}
diff --git a/src/seerChiFilter.cpp b/src/seerStats.cpp
similarity index 58%
rename from src/seerChiFilter.cpp
rename to src/seerStats.cpp
index 36d7301..2c3aaa5 100644
--- a/src/seerChiFilter.cpp
+++ b/src/seerStats.cpp
@@ -5,7 +5,7 @@
*
*/
-#include "seercommon.hpp"
+#include "seer.hpp"
const double normalArea = pow(2*M_PI, -0.5);
@@ -109,16 +109,101 @@ double welchTwoSamplet(const Kmer& k, const arma::vec& y)
// Calculate p-value from t distribution
boost::math::students_t t_dist(df);
- p_val = 2 * (1 - boost::math::cdf(t_dist, t));
+ p_val = 2 * (1 - boost::math::cdf(t_dist, std::abs(t)));
#ifdef SEER_DEBUG
std::cerr << "welch t:" << t << "df:" << df << "\n";
std::cerr << "welch p-val:" << p_val << "\n";
#endif
+
+ // Seen some errors where cdf = 0, p = 2
+ // hack for now, but should just use regression on every site
+ if (p_val > 1)
+ {
+ p_val = 1;
+ }
}
return p_val;
}
+// Fit null models for null log-likelihoods
+double nullLogLikelihood(const arma::mat& x, const arma::vec& y, const int continuous)
+{
+ double null_ll = 0;
+ Kmer null_kmer;
+ if (x.n_cols > 1)
+ {
+ if (continuous)
+ {
+ doLinear(null_kmer, y, x);
+ }
+ else
+ {
+ doLogit(null_kmer, y, x);
+ }
+ null_ll = null_kmer.log_likelihood();
+ }
+ else
+ {
+ dlib::matrix<double,1,1> intercept;
+
+ if (continuous)
+ {
+ intercept(0) = mean(y);
+ LinearLikelihood likelihood_fit(x, y);
+ null_ll = 2*likelihood_fit(intercept);
+ }
+ else
+ {
+ intercept(0) = log(mean(y)/(1-mean(y))); // null is: intercept = log-odds of success
+ LogitLikelihood likelihood_fit(x, y);
+ null_ll = likelihood_fit(intercept);
+ }
+ }
+ return null_ll;
+}
+
+// Likelihood-ratio test
+double likelihoodRatioTest(Kmer& k, const double null_ll, const int continuous)
+{
+ double log_likelihood = k.log_likelihood();
+ double lrt_p = 1;
+ if (log_likelihood == 0 || null_ll == 0)
+ {
+ k.add_comment("zero-ll");
+ }
+ else
+ {
+ double lrt = 0;
+ if (continuous)
+ {
+ // R0 = y - Xb for model 0 betas etc
+ // Using LRT = n * (1-R1/R0) as a quick estimate for sigma
+ // from econweb.rutgers.edu/klein/classes/fall08/e401/handouts/lrtests.pdf
+ //
+ // sigma = R0*R1 would be better, but doesn't matter too much as
+ // I don't think this will be too useful
+ //
+ // Properly in:
+ // MEASUREMENT SCIENCE REVIEW, Volume 9, Section 1, No. 1, 2009
+ // 10.2478/v10048-009-0003-9
+ // Exact Likelihood Ratio Test for the Parameters of the Linear
+ // Regression Model with Normal Errors
+ lrt = k.get_x().n_rows * (1-log_likelihood/null_ll);
+ }
+ else
+ {
+ lrt = pow(2*(log_likelihood - null_ll), 0.5);
+ }
+
+ if (lrt > 0)
+ {
+ lrt_p = normalPval(lrt);
+ }
+ }
+ return lrt_p;
+}
+
// Returns p-value for a test statistic that is >0 and standard normally distributed
double normalPval(double testStatistic)
{
@@ -146,3 +231,25 @@ double normalPval(double testStatistic)
return p_val;
}
+
+int passStatsFilters(const cmdOptions& filterOptions, Kmer& k, const arma::vec& y, const int continuous_phenotype)
+{
+ int passed = 1;
+
+ if (continuous_phenotype)
+ {
+ k.unadj_p_val(welchTwoSamplet(k, y));
+ }
+ else
+ {
+ k.unadj_p_val(chiTest(k, y));
+ }
+
+ if (k.unadj() > filterOptions.chi_cutoff)
+ {
+ passed = 0;
+ }
+
+ return passed;
+}
+
diff --git a/src/seercommon.hpp b/src/seercommon.hpp
index c43376f..1762aea 100644
--- a/src/seercommon.hpp
+++ b/src/seercommon.hpp
@@ -41,7 +41,7 @@
#include "covar.hpp"
// Constants
-const std::string VERSION = "1.1.2";
+const std::string VERSION = "1.1.4";
// Default options
const double maf_default = 0.01;
const long int max_length_default = 100;
@@ -110,12 +110,5 @@ arma::mat encodeDummy(const std::vector<std::string>& in_col);
int fileStat(const std::string& filename);
// seerFilter headers
-int passFilters(const cmdOptions& filterOptions, Kmer& k, const std::vector<Sample>& samples, const arma::vec& y, const int continuous_phenotype, const bool do_stats = 1);
-int passBasicFilters(const Kmer& k, const int max_length, const int min_words, const int max_words);
-int passStatsFilters(Kmer& k, const arma::vec& y, const double chi_cutoff, const int continuous_phenotype);
-
-// seerChiFilter headers
-double chiTest(Kmer& k, const arma::vec& y);
-double welchTwoSamplet(const Kmer& k, const arma::vec& y);
-double normalPval(double testStatistic);
+int passBasicFilters(const cmdOptions& filterOptions, const Kmer& k);
diff --git a/src/significant_kmer.cpp b/src/significant_kmer.cpp
index e2fc1da..bf6b258 100644
--- a/src/significant_kmer.cpp
+++ b/src/significant_kmer.cpp
@@ -18,8 +18,8 @@ Significant_kmer::Significant_kmer(const int num_covars)
{
}
-Significant_kmer::Significant_kmer(const std::string& word, const std::vector<std::string>& samples, const double maf, const double unadj_p, const double adj_p, const double beta, const double se, const std::string& comments)
- :_line_nr(0), _word(word), _samples(samples), _maf(maf), _unadj_p(unadj_p), _adj_p(adj_p), _beta(beta), _se(se), _comment(comments), _num_covars(default_covars)
+Significant_kmer::Significant_kmer(const std::string& word, const std::vector<std::string>& samples, const double maf, const double unadj_p, const double adj_p, const double lrt_p, const double beta, const double se, const std::string& comments)
+ :_line_nr(0), _word(word), _samples(samples), _maf(maf), _unadj_p(unadj_p), _adj_p(adj_p), _adj_lrt_p(lrt_p), _beta(beta), _se(se), _comment(comments), _num_covars(default_covars)
{
}
@@ -27,7 +27,7 @@ Significant_kmer::Significant_kmer(const std::string& word, const std::vector<st
// Sample vector is returned sorted
std::istream& operator>>(std::istream &is, Significant_kmer& sk)
{
- double maf, unadj_p, adj_p, beta, se;
+ double maf, unadj_p, adj_p, lrt_p, beta, se;
std::string sequence, sample, line_in, comments = "";
std::vector<std::string> sample_list;
@@ -40,6 +40,7 @@ std::istream& operator>>(std::istream &is, Significant_kmer& sk)
line_stream >> maf;
line_stream >> unadj_p;
line_stream >> adj_p;
+ line_stream >> lrt_p;
line_stream >> beta;
line_stream >> se;
@@ -57,7 +58,7 @@ std::istream& operator>>(std::istream &is, Significant_kmer& sk)
// Ensure vector remains sorted on sample name
std::sort(sample_list.begin(), sample_list.end());
- sk = Significant_kmer(sequence, sample_list, maf, unadj_p, adj_p, beta, se, comments);
+ sk = Significant_kmer(sequence, sample_list, maf, unadj_p, adj_p, lrt_p, beta, se, comments);
return is;
}
@@ -65,10 +66,9 @@ std::istream& operator>>(std::istream &is, Significant_kmer& sk)
// Print fields tab sep, identical to input. Doesn't print newline
std::ostream& operator<<(std::ostream &os, const Significant_kmer& k)
{
- os << k.sequence() << "\t"
- << std::fixed << std::setprecision(3) << k.maf() << "\t"
- << std::scientific << k.unadj() << "\t" << k.p_val() << "\t" << k.beta() << "\t" << k.se()
- << "\t" << k.comments();
+ os << std::fixed << std::setprecision(3) << k.sequence() << "\t" << k.maf()
+ << "\t" << std::scientific << k.unadj() << "\t" << k.p_val() << "\t" << k.lrt_p_val()
+ << "\t" << k.beta() << "\t" << k.se();
std::vector<std::string> samples_found = k.samples_found();
if (samples_found.size() > 0)
@@ -135,10 +135,16 @@ int parseHeader(const std::string& header_line)
{
std::string col;
iss >> col;
- if (col.length() > 0)
+ if (col.length() > 0 && col != "samples_present") // Ignore samples present, which may appear after covars
{
num_cols++;
}
+
+ if (num_cols == 1 && col != "sequence")
+ {
+ throw std::runtime_error("Could not parse header row of input file");
+ }
+
}
while(iss);
diff --git a/src/significant_kmer.hpp b/src/significant_kmer.hpp
index 56c3621..77e247a 100644
--- a/src/significant_kmer.hpp
+++ b/src/significant_kmer.hpp
@@ -14,7 +14,7 @@
#include <stdexcept>
const int default_covars = 0;
-const int standard_cols = 7;
+const int standard_cols = 8;
// kmers have a sequence, and a list of samples they appear in
class Significant_kmer
@@ -23,7 +23,7 @@ class Significant_kmer
// Initialisation
Significant_kmer();
Significant_kmer(const int num_covars);
- Significant_kmer(const std::string& word, const std::vector<std::string>& samples, const double maf, const double unadj_p, const double adj_p, const double beta, const double se, const std::string& comments);
+ Significant_kmer(const std::string& word, const std::vector<std::string>& samples, const double maf, const double unadj_p, const double adj_p, const double lrt_p, const double beta, const double se, const std::string& comments);
// nonmodifying operations
long int line_number() const { return _line_nr; }
@@ -32,6 +32,7 @@ class Significant_kmer
double maf() const { return _maf; }
double unadj() const { return _unadj_p; }
double p_val() const { return _adj_p; }
+ double lrt_p_val() const { return _adj_lrt_p; }
double beta() const { return _beta; }
double se() const { return _se; }
std::string comments() const { return _comment; }
@@ -42,6 +43,7 @@ class Significant_kmer
// Modifying operations
void set_line_nr(const long int line_nr) { _line_nr = line_nr; }
void p_val(const double pvalue) { _adj_p = pvalue; }
+ void lrt_p_val(const double lrt_pvalue) { _adj_lrt_p = lrt_pvalue; }
void unadj_p_val(const double chi_pvalue) { _unadj_p = chi_pvalue; }
void beta(const double b) { _beta = b; }
void standard_error(const double se) { _se = se; }
@@ -58,6 +60,7 @@ class Significant_kmer
double _maf;
double _unadj_p;
double _adj_p;
+ double _adj_lrt_p;
double _beta;
double _se;
std::vector<double> _covar_p;
diff --git a/test/filter_in.txt b/test/filter_in.txt
index dabdda0..2708bf2 100644
--- a/test/filter_in.txt
+++ b/test/filter_in.txt
@@ -1,175 +1,175 @@
-sequence maf unadj_p_val p_val beta se covar1_p covar2_p covar3_p comments
-AAAAAAAAAAAAAAAAAAAT 0.055 1.379e-02 4.776e-02 1.819e+00 9.189e-01 4.800e-01 9.382e-01 9.666e-01 bad-chisq
-AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAA 0.080 6.443e-03 1.346e-02 1.919e+00 7.764e-01 3.663e-01 9.671e-01 7.761e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.080 6.443e-03 1.346e-02 1.919e+00 7.764e-01 3.663e-01 9.671e-01 7.761e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.080 6.443e-03 1.346e-02 1.919e+00 7.764e-01 3.663e-01 9.671e-01 7.761e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTATCTT 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTATCT 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTAT 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATAT 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCAT 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCA 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATG 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAAT 0.100 1.784e-02 2.142e-02 1.343e+00 5.840e-01 3.693e-01 9.802e-01 8.779e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAG 0.100 1.784e-02 2.303e-02 1.325e+00 5.830e-01 4.360e-01 9.382e-01 8.409e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.100 1.784e-02 2.303e-02 1.325e+00 5.830e-01 4.360e-01 9.382e-01 8.409e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.100 1.784e-02 2.303e-02 1.325e+00 5.830e-01 4.360e-01 9.382e-01 8.409e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.115 4.668e-03 7.813e-03 1.524e+00 5.730e-01 4.440e-01 8.681e-01 8.570e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.115 4.668e-03 7.813e-03 1.524e+00 5.730e-01 4.440e-01 8.681e-01 8.570e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTT 0.120 2.937e-03 5.542e-03 1.581e+00 5.700e-01 4.436e-01 8.702e-01 8.947e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCT 0.120 2.937e-03 5.542e-03 1.581e+00 5.700e-01 4.436e-01 8.702e-01 8.947e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTAT 0.130 4.631e-03 7.210e-03 1.401e+00 5.215e-01 4.380e-01 8.632e-01 9.925e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATAT 0.130 4.631e-03 7.210e-03 1.401e+00 5.215e-01 4.380e-01 8.632e-01 9.925e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCAT 0.130 4.631e-03 7.210e-03 1.401e+00 5.215e-01 4.380e-01 8.632e-01 9.925e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCA 0.130 4.631e-03 7.210e-03 1.401e+00 5.215e-01 4.380e-01 8.632e-01 9.925e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATG 0.130 4.631e-03 7.210e-03 1.401e+00 5.215e-01 4.380e-01 8.632e-01 9.925e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAT 0.145 1.460e-02 1.692e-02 1.103e+00 4.617e-01 4.254e-01 8.504e-01 9.926e-01 bfgs-fail
-AAAAAAAAAAAAAAAAA 0.175 3.743e-03 5.035e-03 1.214e+00 4.329e-01 4.415e-01 8.548e-01 8.861e-01 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGT 0.140 2.869e-01 2.909e-01 4.492e-01 4.253e-01 4.839e-01 8.594e-01 9.716e-01 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.140 2.869e-01 2.909e-01 4.492e-01 4.253e-01 4.839e-01 8.594e-01 9.716e-01 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.140 2.869e-01 2.909e-01 4.492e-01 4.253e-01 4.839e-01 8.594e-01 9.716e-01 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.140 2.869e-01 2.909e-01 4.492e-01 4.253e-01 4.839e-01 8.594e-01 9.716e-01 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.155 1.208e-01 1.251e-01 6.365e-01 4.150e-01 4.853e-01 8.472e-01 9.691e-01 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.185 3.320e-01 3.402e-01 3.586e-01 3.760e-01 4.944e-01 8.582e-01 9.872e-01 NA
-AAAAAAAAAAAAAAAATGCATATTTATCTT 0.190 2.614e-01 2.693e-01 4.125e-01 3.734e-01 4.941e-01 8.688e-01 9.826e-01 NA
-AAAAAAAAAAAAAAAATGCATATTTATCT 0.190 2.614e-01 2.693e-01 4.125e-01 3.734e-01 4.941e-01 8.688e-01 9.826e-01 NA
-AAAAAAAAAAAAAAAATGCATATTTAT 0.200 2.864e-01 2.939e-01 3.832e-01 3.650e-01 4.914e-01 8.630e-01 9.528e-01 NA
-AAAAAAAAAAAAAAAATGCATAT 0.200 2.864e-01 2.939e-01 3.832e-01 3.650e-01 4.914e-01 8.630e-01 9.528e-01 NA
-AAAAAAAAAAAAAAAATGCAT 0.200 2.864e-01 2.939e-01 3.832e-01 3.650e-01 4.914e-01 8.630e-01 9.528e-01 NA
-AAAAAAAAAAAAAAAATGCA 0.200 2.864e-01 2.939e-01 3.832e-01 3.650e-01 4.914e-01 8.630e-01 9.528e-01 NA
-AAAAAAAAAAAAAAAATG 0.200 2.864e-01 2.939e-01 3.832e-01 3.650e-01 4.914e-01 8.630e-01 9.528e-01 NA
-AAAAAAAAAAAAAAAAT 0.215 4.162e-01 4.195e-01 2.846e-01 3.526e-01 4.865e-01 8.436e-01 9.457e-01 NA
-AAAAAAAAAAAAAAAA 0.250 1.396e-01 1.407e-01 4.992e-01 3.389e-01 4.742e-01 8.688e-01 9.113e-01 NA
-AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGC 0.065 1.003e-01 1.073e-01 1.090e+00 6.767e-01 4.461e-01 7.806e-01 8.882e-01 bfgs-fail
-AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.065 1.003e-01 1.073e-01 1.090e+00 6.767e-01 4.461e-01 7.806e-01 8.882e-01 bfgs-fail
-AAAAAAAAAAAAAAAGTGTTAAAATAAA 0.070 6.602e-02 7.803e-02 1.179e+00 6.691e-01 4.705e-01 8.135e-01 9.195e-01 bfgs-fail
-AAAAAAAAAAAAAAAGTGTTAAAA 0.070 6.602e-02 7.803e-02 1.179e+00 6.691e-01 4.705e-01 8.135e-01 9.195e-01 bfgs-fail
-AAAAAAAAAAAAAAAGT 0.075 4.301e-02 5.301e-02 1.284e+00 6.636e-01 4.553e-01 7.770e-01 9.185e-01 bfgs-fail
-AAAAAAAAAAAAAAAG 0.090 4.172e-02 5.147e-02 1.143e+00 5.868e-01 5.056e-01 7.789e-01 9.206e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.185 1.815e-01 1.739e-01 5.194e-01 3.819e-01 4.553e-01 8.548e-01 9.507e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.185 1.815e-01 1.739e-01 5.194e-01 3.819e-01 4.553e-01 8.548e-01 9.507e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.185 1.815e-01 1.739e-01 5.194e-01 3.819e-01 4.553e-01 8.548e-01 9.507e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.185 1.815e-01 1.739e-01 5.194e-01 3.819e-01 4.553e-01 8.548e-01 9.507e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.190 1.374e-01 1.356e-01 5.656e-01 3.790e-01 4.660e-01 8.608e-01 9.580e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.190 1.374e-01 1.356e-01 5.656e-01 3.790e-01 4.660e-01 8.608e-01 9.580e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.190 1.374e-01 1.356e-01 5.656e-01 3.790e-01 4.660e-01 8.608e-01 9.580e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.190 1.374e-01 1.356e-01 5.656e-01 3.790e-01 4.660e-01 8.608e-01 9.580e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.210 8.728e-02 8.829e-02 6.240e-01 3.661e-01 4.822e-01 8.481e-01 9.464e-01 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
-AAAAAAAAAAAAAAA 0.385 1.865e-03 2.396e-03 9.314e-01 3.068e-01 6.072e-01 9.797e-01 9.386e-01 NA
-AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCT 0.105 2.560e-01 2.732e-01 5.374e-01 4.905e-01 5.197e-01 8.365e-01 8.727e-01 bfgs-fail
-AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.105 2.560e-01 2.732e-01 5.374e-01 4.905e-01 5.197e-01 8.365e-01 8.727e-01 bfgs-fail
-AAAAAAAAAAAAAAGTGTTAAAATAAA 0.110 1.877e-01 2.085e-01 6.109e-01 4.857e-01 5.400e-01 8.626e-01 8.852e-01 bfgs-fail
-AAAAAAAAAAAAAAGTGTTAAAA 0.110 1.877e-01 2.085e-01 6.109e-01 4.857e-01 5.400e-01 8.626e-01 8.852e-01 bfgs-fail
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATG 0.040 5.932e-02 1.118e-01 1.526e+00 9.600e-01 4.105e-01 6.984e-01 9.276e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.040 5.932e-02 1.118e-01 1.526e+00 9.600e-01 4.105e-01 6.984e-01 9.276e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.040 5.932e-02 1.118e-01 1.526e+00 9.600e-01 4.105e-01 6.984e-01 9.276e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.045 3.651e-02 7.759e-02 1.669e+00 9.458e-01 4.055e-01 6.478e-01 9.276e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAATG 0.045 3.651e-02 7.759e-02 1.669e+00 9.458e-01 4.055e-01 6.478e-01 9.276e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAAT 0.045 3.651e-02 7.759e-02 1.669e+00 9.458e-01 4.055e-01 6.478e-01 9.276e-01 bad-chisq
-AAAAAAAAAAAAAAGT 0.165 8.715e-03 1.143e-02 1.102e+00 4.358e-01 5.330e-01 7.826e-01 8.222e-01 bfgs-fail
-AAAAAAAAAAAAAAG 0.185 1.493e-02 1.838e-02 9.497e-01 4.028e-01 5.504e-01 8.143e-01 8.662e-01 NA
-AAAAAAAAAAAAAATGCATATTTATATTAGCAAAA 0.125 1.834e-03 4.234e-03 1.621e+00 5.666e-01 5.379e-01 7.851e-01 8.786e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATATTAG 0.125 1.834e-03 4.234e-03 1.621e+00 5.666e-01 5.379e-01 7.851e-01 8.786e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATATTA 0.130 1.137e-03 2.841e-03 1.687e+00 5.654e-01 4.903e-01 7.845e-01 8.269e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.205 3.884e-01 3.532e-01 3.367e-01 3.626e-01 4.493e-01 8.084e-01 9.819e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.205 3.884e-01 3.532e-01 3.367e-01 3.626e-01 4.493e-01 8.084e-01 9.819e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.205 3.884e-01 3.532e-01 3.367e-01 3.626e-01 4.493e-01 8.084e-01 9.819e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.205 3.884e-01 3.532e-01 3.367e-01 3.626e-01 4.493e-01 8.084e-01 9.819e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.210 3.115e-01 2.878e-01 3.821e-01 3.594e-01 4.520e-01 8.114e-01 9.820e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.210 3.115e-01 2.878e-01 3.821e-01 3.594e-01 4.520e-01 8.114e-01 9.820e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.210 3.115e-01 2.878e-01 3.821e-01 3.594e-01 4.520e-01 8.114e-01 9.820e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.210 3.115e-01 2.878e-01 3.821e-01 3.594e-01 4.520e-01 8.114e-01 9.820e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.230 2.114e-01 1.970e-01 4.501e-01 3.489e-01 4.571e-01 8.013e-01 9.659e-01 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
-AAAAAAAAAAAAAATGCA 0.410 1.633e-03 1.796e-03 9.467e-01 3.032e-01 4.803e-01 9.829e-01 8.097e-01 NA
-AAAAAAAAAAAAAAT 0.450 6.645e-03 6.730e-03 8.011e-01 2.956e-01 4.906e-01 8.730e-01 8.226e-01 NA
-AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTA 0.115 2.951e-01 3.039e-01 4.807e-01 4.676e-01 4.956e-01 8.475e-01 8.782e-01 bfgs-fail
-AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.115 2.951e-01 3.039e-01 4.807e-01 4.676e-01 4.956e-01 8.475e-01 8.782e-01 bfgs-fail
-AAAAAAAAAAAAAGTGTTAAAATAAA 0.120 2.207e-01 2.352e-01 5.497e-01 4.631e-01 5.104e-01 8.738e-01 8.892e-01 bfgs-fail
-AAAAAAAAAAAAAGTGTTAAAA 0.120 2.207e-01 2.352e-01 5.497e-01 4.631e-01 5.104e-01 8.738e-01 8.892e-01 bfgs-fail
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGA 0.045 3.651e-02 7.286e-02 1.702e+00 9.489e-01 3.575e-01 6.424e-01 9.279e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.045 3.651e-02 7.286e-02 1.702e+00 9.489e-01 3.575e-01 6.424e-01 9.279e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.045 3.651e-02 7.286e-02 1.702e+00 9.489e-01 3.575e-01 6.424e-01 9.279e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.050 2.246e-02 5.079e-02 1.832e+00 9.377e-01 3.514e-01 5.898e-01 9.280e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAATG 0.050 2.246e-02 5.079e-02 1.832e+00 9.377e-01 3.514e-01 5.898e-01 9.280e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAAT 0.050 2.246e-02 5.079e-02 1.832e+00 9.377e-01 3.514e-01 5.898e-01 9.280e-01 bad-chisq
-AAAAAAAAAAAAAGTT 0.055 6.589e-02 6.390e-02 1.493e+00 8.058e-01 3.369e-01 6.244e-01 8.821e-01 bfgs-fail
-AAAAAAAAAAAAAGT 0.195 6.759e-03 7.875e-03 1.065e+00 4.007e-01 4.464e-01 7.831e-01 8.237e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.245 9.868e-01 9.328e-01 2.821e-02 3.343e-01 4.964e-01 7.845e-01 9.308e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.245 9.868e-01 9.328e-01 2.821e-02 3.343e-01 4.964e-01 7.845e-01 9.308e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.245 9.868e-01 9.328e-01 2.821e-02 3.343e-01 4.964e-01 7.845e-01 9.308e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.245 9.868e-01 9.328e-01 2.821e-02 3.343e-01 4.964e-01 7.845e-01 9.308e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.250 8.696e-01 8.247e-01 7.344e-02 3.316e-01 4.904e-01 7.833e-01 9.380e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.250 8.696e-01 8.247e-01 7.344e-02 3.316e-01 4.904e-01 7.833e-01 9.380e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.250 8.696e-01 8.247e-01 7.344e-02 3.316e-01 4.904e-01 7.833e-01 9.380e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.250 8.696e-01 8.247e-01 7.344e-02 3.316e-01 4.904e-01 7.833e-01 9.380e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.270 6.773e-01 6.411e-01 1.511e-01 3.241e-01 4.842e-01 7.764e-01 9.519e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
-AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
-AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.015 6.823e-01 7.220e-01 4.318e-01 1.214e+00 4.796e-01 7.715e-01 9.468e-01 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.015 6.823e-01 7.220e-01 4.318e-01 1.214e+00 4.796e-01 7.715e-01 9.468e-01 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.020 8.391e-01 9.382e-01 -8.000e-02 1.031e+00 5.114e-01 7.913e-01 9.217e-01 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTATATATA 0.020 8.391e-01 9.382e-01 -8.000e-02 1.031e+00 5.114e-01 7.913e-01 9.217e-01 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTATATAT 0.020 8.391e-01 9.382e-01 -8.000e-02 1.031e+00 5.114e-01 7.913e-01 9.217e-01 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTATATA 0.020 8.391e-01 9.382e-01 -8.000e-02 1.031e+00 5.114e-01 7.913e-01 9.217e-01 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTATA 0.025 4.947e-01 5.480e-01 -5.599e-01 9.318e-01 5.328e-01 8.223e-01 9.241e-01 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTGTATATATATAT 0.010 8.864e-01 8.680e-01 -2.372e-01 1.428e+00 5.119e-01 7.799e-01 9.218e-01 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTGTATATATATA 0.010 8.864e-01 8.680e-01 -2.372e-01 1.428e+00 5.119e-01 7.799e-01 9.218e-01 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTGTATATATAT 0.010 8.864e-01 8.680e-01 -2.372e-01 1.428e+00 5.119e-01 7.799e-01 9.218e-01 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTGTATATATA 0.010 8.864e-01 8.680e-01 -2.372e-01 1.428e+00 5.119e-01 7.799e-01 9.218e-01 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTGTATAT 0.010 8.864e-01 8.680e-01 -2.372e-01 1.428e+00 5.119e-01 7.799e-01 9.218e-01 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTG 0.010 8.864e-01 8.680e-01 -2.372e-01 1.428e+00 5.119e-01 7.799e-01 9.218e-01 bad-chisq
-AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTAA 0.115 2.951e-01 3.039e-01 4.807e-01 4.676e-01 4.956e-01 8.475e-01 8.782e-01 bfgs-fail
-AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.115 2.951e-01 3.039e-01 4.807e-01 4.676e-01 4.956e-01 8.475e-01 8.782e-01 bfgs-fail
-AAAAAAAAAAAAGTGTTAAAATAAA 0.120 2.207e-01 2.352e-01 5.497e-01 4.631e-01 5.104e-01 8.738e-01 8.892e-01 bfgs-fail
-AAAAAAAAAAAAGTGTTAAAA 0.120 2.207e-01 2.352e-01 5.497e-01 4.631e-01 5.104e-01 8.738e-01 8.892e-01 bfgs-fail
-AAAAAAAAAAAAGTG 0.120 2.207e-01 2.352e-01 5.497e-01 4.631e-01 5.104e-01 8.738e-01 8.892e-01 bfgs-fail
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGAG 0.050 2.246e-02 5.397e-02 1.801e+00 9.344e-01 3.593e-01 6.842e-01 9.787e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.050 2.246e-02 5.397e-02 1.801e+00 9.344e-01 3.593e-01 6.842e-01 9.787e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.050 2.246e-02 5.397e-02 1.801e+00 9.344e-01 3.593e-01 6.842e-01 9.787e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.055 1.379e-02 3.811e-02 1.919e+00 9.255e-01 3.542e-01 6.309e-01 9.801e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATGCA 0.055 1.379e-02 3.811e-02 1.919e+00 9.255e-01 3.542e-01 6.309e-01 9.801e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATG 0.055 1.379e-02 3.811e-02 1.919e+00 9.255e-01 3.542e-01 6.309e-01 9.801e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAAT 0.055 1.379e-02 3.811e-02 1.919e+00 9.255e-01 3.542e-01 6.309e-01 9.801e-01 bad-chisq
-AAAAAAAAAAAAGTT 0.060 4.186e-02 4.602e-02 1.589e+00 7.966e-01 3.347e-01 6.554e-01 9.229e-01 bfgs-fail
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.290 3.637e-01 3.917e-01 -2.700e-01 3.152e-01 5.267e-01 8.373e-01 9.031e-01 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.295 4.451e-01 4.785e-01 -2.223e-01 3.136e-01 5.263e-01 8.204e-01 8.992e-01 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.295 4.451e-01 4.785e-01 -2.223e-01 3.136e-01 5.263e-01 8.204e-01 8.992e-01 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGT 0.295 4.451e-01 4.785e-01 -2.223e-01 3.136e-01 5.263e-01 8.204e-01 8.992e-01 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.295 4.451e-01 4.785e-01 -2.223e-01 3.136e-01 5.263e-01 8.204e-01 8.992e-01 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.295 4.451e-01 4.785e-01 -2.223e-01 3.136e-01 5.263e-01 8.204e-01 8.992e-01 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.025 2.551e-01 4.089e-01 8.642e-01 1.047e+00 5.698e-01 8.546e-01 9.904e-01 bad-chisq
-AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.025 2.551e-01 4.089e-01 8.642e-01 1.047e+00 5.698e-01 8.546e-01 9.904e-01 bad-chisq
-AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.025 2.551e-01 4.089e-01 8.642e-01 1.047e+00 5.698e-01 8.546e-01 9.904e-01 bad-chisq
-AAAAAAAAAAAGAAAGATAGTTTAACCTATGAAAAAATCACTAAAAATTTTTGCTACATCTAAATAGTTTGACCTCTTCGGGGTTGCTTTGGTCGTTGGG 0.060 1.197e-01 1.306e-01 -9.544e-01 6.313e-01 4.785e-01 8.458e-01 9.541e-01 bfgs-fail
-AAAAAAAAAAAGAAAG 0.060 1.197e-01 1.306e-01 -9.544e-01 6.313e-01 4.785e-01 8.458e-01 9.541e-01 bfgs-fail
-AAAAAAAAAAAGAAA 0.085 6.398e-03 1.157e-02 -1.493e+00 5.915e-01 5.221e-01 8.265e-01 9.654e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATAT 0.010 1.986e-01 4.818e-01 1.350e+00 1.919e+00 5.863e-01 9.079e-01 9.551e-01 bad-chisq
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATCATAAGATAAGTTTTTTATAAAGACACGCAAATGAGTATAAATCAGCTAATTTT 0.010 1.986e-01 4.772e-01 1.357e+00 1.909e+00 5.991e-01 7.892e-01 9.846e-01 bad-chisq
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATAT 0.035 9.076e-01 9.512e-01 4.828e-02 7.884e-01 5.038e-01 7.870e-01 9.317e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATA 0.035 9.076e-01 9.512e-01 4.828e-02 7.884e-01 5.038e-01 7.870e-01 9.317e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATAT 0.045 4.716e-01 4.706e-01 5.278e-01 7.315e-01 5.102e-01 7.677e-01 9.929e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATA 0.045 4.716e-01 4.706e-01 5.278e-01 7.315e-01 5.102e-01 7.677e-01 9.929e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATAT 0.060 4.021e-01 3.758e-01 5.683e-01 6.417e-01 4.826e-01 7.479e-01 9.837e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATA 0.060 4.021e-01 3.758e-01 5.683e-01 6.417e-01 4.826e-01 7.479e-01 9.837e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATAT 0.080 2.491e-01 2.257e-01 6.864e-01 5.666e-01 4.363e-01 7.834e-01 9.647e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATA 0.080 2.491e-01 2.257e-01 6.864e-01 5.666e-01 4.363e-01 7.834e-01 9.647e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATAT 0.095 8.528e-02 7.112e-02 9.990e-01 5.535e-01 3.602e-01 7.502e-01 8.892e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATA 0.100 1.552e-01 1.338e-01 7.780e-01 5.188e-01 4.012e-01 7.586e-01 9.488e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATTATAAGATAAGTTTTTTATAAAGACACGCAAATGAGTATAAATCAGCTAATTTTTGGTTTA 0.015 5.368e-02 2.295e-01 -2.108e+00 1.755e+00 6.532e-01 8.589e-01 8.506e-01 bad-chisq
-AAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.115 5.475e-01 4.655e-01 3.394e-01 4.650e-01 4.382e-01 7.633e-01 9.943e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.115 5.475e-01 4.655e-01 3.394e-01 4.650e-01 4.382e-01 7.633e-01 9.943e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.120 7.264e-01 6.197e-01 2.258e-01 4.550e-01 4.539e-01 7.635e-01 9.715e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATA 0.120 7.264e-01 6.197e-01 2.258e-01 4.550e-01 4.539e-01 7.635e-01 9.715e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATAT 0.120 7.264e-01 6.197e-01 2.258e-01 4.550e-01 4.539e-01 7.635e-01 9.715e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATA 0.120 7.264e-01 6.197e-01 2.258e-01 4.550e-01 4.539e-01 7.635e-01 9.715e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATAT 0.120 7.264e-01 6.197e-01 2.258e-01 4.550e-01 4.539e-01 7.635e-01 9.715e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATA 0.125 9.144e-01 8.209e-01 9.981e-02 4.408e-01 4.836e-01 7.758e-01 9.423e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTA 0.125 9.144e-01 8.209e-01 9.981e-02 4.408e-01 4.836e-01 7.758e-01 9.423e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTGTATATATATATATATAT 0.055 6.589e-02 9.701e-02 1.330e+00 8.013e-01 6.909e-01 7.888e-01 9.626e-01 bfgs-fail
+sequence maf chisq_p_val wald_p_val lrt_p_val beta se comments
+AAAAAAAAAAAAAAAAAAAT 0.055 1.379e-02 4.747e-02 8.661e-04 1.830e+00 9.233e-01 bad-chisq
+AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAA 0.080 6.443e-03 1.580e-02 3.613e-03 1.859e+00 7.702e-01 NA
+AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.080 6.443e-03 1.580e-02 3.613e-03 1.859e+00 7.702e-01 NA
+AAAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.080 6.443e-03 1.580e-02 3.613e-03 1.859e+00 7.702e-01 NA
+AAAAAAAAAAAAAAAAAATGCATATTTATCTT 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01 NA
+AAAAAAAAAAAAAAAAAATGCATATTTATCT 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01 NA
+AAAAAAAAAAAAAAAAAATGCATATTTAT 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01 NA
+AAAAAAAAAAAAAAAAAATGCATAT 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01 NA
+AAAAAAAAAAAAAAAAAATGCAT 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01 NA
+AAAAAAAAAAAAAAAAAATGCA 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01 NA
+AAAAAAAAAAAAAAAAAATG 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01 NA
+AAAAAAAAAAAAAAAAAAT 0.100 1.784e-02 2.494e-02 1.381e-02 1.297e+00 5.786e-01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAG 0.100 1.784e-02 2.494e-02 1.381e-02 1.297e+00 5.786e-01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.100 1.784e-02 2.494e-02 1.381e-02 1.297e+00 5.786e-01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.100 1.784e-02 2.494e-02 1.381e-02 1.297e+00 5.786e-01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.115 4.668e-03 8.463e-03 3.064e-03 1.502e+00 5.703e-01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.115 4.668e-03 8.463e-03 3.064e-03 1.502e+00 5.703e-01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCTT 0.120 2.937e-03 5.905e-03 1.811e-03 1.564e+00 5.681e-01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCT 0.120 2.937e-03 5.905e-03 1.811e-03 1.564e+00 5.681e-01 NA
+AAAAAAAAAAAAAAAAATGCATATTTAT 0.130 4.631e-03 7.579e-03 3.225e-03 1.389e+00 5.202e-01 NA
+AAAAAAAAAAAAAAAAATGCATAT 0.130 4.631e-03 7.579e-03 3.225e-03 1.389e+00 5.202e-01 NA
+AAAAAAAAAAAAAAAAATGCAT 0.130 4.631e-03 7.579e-03 3.225e-03 1.389e+00 5.202e-01 NA
+AAAAAAAAAAAAAAAAATGCA 0.130 4.631e-03 7.579e-03 3.225e-03 1.389e+00 5.202e-01 NA
+AAAAAAAAAAAAAAAAATG 0.130 4.631e-03 7.579e-03 3.225e-03 1.389e+00 5.202e-01 NA
+AAAAAAAAAAAAAAAAAT 0.145 1.460e-02 1.820e-02 1.214e-02 1.087e+00 4.601e-01 NA
+AAAAAAAAAAAAAAAAA 0.175 3.743e-03 5.267e-03 2.860e-03 1.204e+00 4.316e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGT 0.140 2.869e-01 2.895e-01 2.830e-01 4.480e-01 4.230e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.140 2.869e-01 2.895e-01 2.830e-01 4.480e-01 4.230e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.140 2.869e-01 2.895e-01 2.830e-01 4.480e-01 4.230e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.140 2.869e-01 2.895e-01 2.830e-01 4.480e-01 4.230e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.155 1.208e-01 1.248e-01 1.164e-01 6.353e-01 4.140e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.185 3.320e-01 3.335e-01 3.295e-01 3.613e-01 3.736e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTT 0.190 2.614e-01 2.633e-01 2.584e-01 4.154e-01 3.713e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCT 0.190 2.614e-01 2.633e-01 2.584e-01 4.154e-01 3.713e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTAT 0.200 2.864e-01 2.880e-01 2.838e-01 3.857e-01 3.630e-01 NA
+AAAAAAAAAAAAAAAATGCATAT 0.200 2.864e-01 2.880e-01 2.838e-01 3.857e-01 3.630e-01 NA
+AAAAAAAAAAAAAAAATGCAT 0.200 2.864e-01 2.880e-01 2.838e-01 3.857e-01 3.630e-01 NA
+AAAAAAAAAAAAAAAATGCA 0.200 2.864e-01 2.880e-01 2.838e-01 3.857e-01 3.630e-01 NA
+AAAAAAAAAAAAAAAATG 0.200 2.864e-01 2.880e-01 2.838e-01 3.857e-01 3.630e-01 NA
+AAAAAAAAAAAAAAAAT 0.215 4.162e-01 4.170e-01 4.146e-01 2.845e-01 3.506e-01 NA
+AAAAAAAAAAAAAAAA 0.250 1.396e-01 1.415e-01 1.372e-01 4.953e-01 3.369e-01 NA
+AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGC 0.065 1.003e-01 1.144e-01 8.982e-02 1.065e+00 6.744e-01 NA
+AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.065 1.003e-01 1.144e-01 8.982e-02 1.065e+00 6.744e-01 NA
+AAAAAAAAAAAAAAAGTGTTAAAATAAA 0.070 6.602e-02 7.971e-02 5.670e-02 1.170e+00 6.677e-01 NA
+AAAAAAAAAAAAAAAGTGTTAAAA 0.070 6.602e-02 7.971e-02 5.670e-02 1.170e+00 6.677e-01 NA
+AAAAAAAAAAAAAAAGT 0.075 4.301e-02 5.562e-02 3.524e-02 1.267e+00 6.621e-01 NA
+AAAAAAAAAAAAAAAG 0.090 4.172e-02 5.119e-02 3.531e-02 1.143e+00 5.861e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.185 1.815e-01 1.842e-01 1.780e-01 5.026e-01 3.784e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.185 1.815e-01 1.842e-01 1.780e-01 5.026e-01 3.784e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.185 1.815e-01 1.842e-01 1.780e-01 5.026e-01 3.784e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.185 1.815e-01 1.842e-01 1.780e-01 5.026e-01 3.784e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.190 1.374e-01 1.403e-01 1.339e-01 5.551e-01 3.764e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.190 1.374e-01 1.403e-01 1.339e-01 5.551e-01 3.764e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.190 1.374e-01 1.403e-01 1.339e-01 5.551e-01 3.764e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.190 1.374e-01 1.403e-01 1.339e-01 5.551e-01 3.764e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.210 8.728e-02 8.998e-02 8.421e-02 6.172e-01 3.640e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00 bad-chisq
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00 bad-chisq
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00 bad-chisq
+AAAAAAAAAAAAAAA 0.385 1.865e-03 2.107e-03 1.697e-03 9.388e-01 3.053e-01 NA
+AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCT 0.105 2.560e-01 2.604e-01 2.506e-01 5.476e-01 4.866e-01 NA
+AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.105 2.560e-01 2.604e-01 2.506e-01 5.476e-01 4.866e-01 NA
+AAAAAAAAAAAAAAGTGTTAAAATAAA 0.110 1.877e-01 1.930e-01 1.818e-01 6.271e-01 4.818e-01 NA
+AAAAAAAAAAAAAAGTGTTAAAA 0.110 1.877e-01 1.930e-01 1.818e-01 6.271e-01 4.818e-01 NA
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATG 0.040 5.932e-02 1.271e-01 4.825e-03 1.464e+00 9.597e-01 bad-chisq
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.040 5.932e-02 1.271e-01 4.825e-03 1.464e+00 9.597e-01 bad-chisq
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.040 5.932e-02 1.271e-01 4.825e-03 1.464e+00 9.597e-01 bad-chisq
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.045 3.651e-02 9.054e-02 2.755e-03 1.599e+00 9.447e-01 bad-chisq
+AAAAAAAAAAAAAAGTTCAAAATG 0.045 3.651e-02 9.054e-02 2.755e-03 1.599e+00 9.447e-01 bad-chisq
+AAAAAAAAAAAAAAGTTCAAAAT 0.045 3.651e-02 9.054e-02 2.755e-03 1.599e+00 9.447e-01 bad-chisq
+AAAAAAAAAAAAAAGT 0.165 8.715e-03 1.113e-02 7.115e-03 1.104e+00 4.347e-01 NA
+AAAAAAAAAAAAAAG 0.185 1.493e-02 1.734e-02 1.304e-02 9.564e-01 4.020e-01 NA
+AAAAAAAAAAAAAATGCATATTTATATTAGCAAAA 0.125 1.834e-03 4.123e-03 1.059e-03 1.624e+00 5.661e-01 NA
+AAAAAAAAAAAAAATGCATATTTATATTAG 0.125 1.834e-03 4.123e-03 1.059e-03 1.624e+00 5.661e-01 NA
+AAAAAAAAAAAAAATGCATATTTATATTA 0.130 1.137e-03 2.881e-03 6.122e-04 1.682e+00 5.643e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.205 3.884e-01 3.894e-01 3.865e-01 3.077e-01 3.575e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.205 3.884e-01 3.894e-01 3.865e-01 3.077e-01 3.575e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.205 3.884e-01 3.894e-01 3.865e-01 3.077e-01 3.575e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.205 3.884e-01 3.894e-01 3.865e-01 3.077e-01 3.575e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.210 3.115e-01 3.129e-01 3.092e-01 3.588e-01 3.555e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.210 3.115e-01 3.129e-01 3.092e-01 3.588e-01 3.555e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.210 3.115e-01 3.129e-01 3.092e-01 3.588e-01 3.555e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.210 3.115e-01 3.129e-01 3.092e-01 3.588e-01 3.555e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.230 2.114e-01 2.132e-01 2.089e-01 4.301e-01 3.455e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00 bad-chisq
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00 bad-chisq
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00 bad-chisq
+AAAAAAAAAAAAAATGCA 0.410 1.633e-03 1.834e-03 1.499e-03 9.372e-01 3.008e-01 NA
+AAAAAAAAAAAAAAT 0.450 6.645e-03 7.038e-03 6.392e-03 7.893e-01 2.929e-01 NA
+AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTA 0.115 2.951e-01 2.984e-01 2.906e-01 4.815e-01 4.630e-01 NA
+AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.115 2.951e-01 2.984e-01 2.906e-01 4.815e-01 4.630e-01 NA
+AAAAAAAAAAAAAGTGTTAAAATAAA 0.120 2.207e-01 2.249e-01 2.155e-01 5.566e-01 4.586e-01 NA
+AAAAAAAAAAAAAGTGTTAAAA 0.120 2.207e-01 2.249e-01 2.155e-01 5.566e-01 4.586e-01 NA
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGA 0.045 3.651e-02 9.054e-02 2.755e-03 1.599e+00 9.447e-01 bad-chisq
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.045 3.651e-02 9.054e-02 2.755e-03 1.599e+00 9.447e-01 bad-chisq
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.045 3.651e-02 9.054e-02 2.755e-03 1.599e+00 9.447e-01 bad-chisq
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.050 2.246e-02 6.522e-02 1.553e-03 1.720e+00 9.329e-01 bad-chisq
+AAAAAAAAAAAAAGTTCAAAATG 0.050 2.246e-02 6.522e-02 1.553e-03 1.720e+00 9.329e-01 bad-chisq
+AAAAAAAAAAAAAGTTCAAAAT 0.050 2.246e-02 6.522e-02 1.553e-03 1.720e+00 9.329e-01 bad-chisq
+AAAAAAAAAAAAAGTT 0.055 6.589e-02 8.577e-02 5.410e-02 1.366e+00 7.952e-01 NA
+AAAAAAAAAAAAAGT 0.195 6.759e-03 8.383e-03 5.629e-03 1.052e+00 3.992e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.245 9.868e-01 9.868e-01 9.868e-01 5.461e-03 3.305e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.245 9.868e-01 9.868e-01 9.868e-01 5.461e-03 3.305e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.245 9.868e-01 9.868e-01 9.868e-01 5.461e-03 3.305e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.245 9.868e-01 9.868e-01 9.868e-01 5.461e-03 3.305e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.250 8.696e-01 8.696e-01 8.696e-01 5.395e-02 3.287e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.250 8.696e-01 8.696e-01 8.696e-01 5.395e-02 3.287e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.250 8.696e-01 8.696e-01 8.696e-01 5.395e-02 3.287e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.250 8.696e-01 8.696e-01 8.696e-01 5.395e-02 3.287e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.270 6.773e-01 6.774e-01 6.769e-01 1.337e-01 3.214e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00 bad-chisq
+AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00 bad-chisq
+AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.015 6.823e-01 7.910e-01 5.492e-02 3.183e-01 1.201e+00 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.015 6.823e-01 7.910e-01 5.492e-02 3.183e-01 1.201e+00 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.020 8.391e-01 8.394e-01 8.395e-01 -2.048e-01 1.010e+00 NA
+AAAAAAAAAAAAGCATTTTACTATTTTATATATA 0.020 8.391e-01 8.394e-01 8.395e-01 -2.048e-01 1.010e+00 NA
+AAAAAAAAAAAAGCATTTTACTATTTTATATAT 0.020 8.391e-01 8.394e-01 8.395e-01 -2.048e-01 1.010e+00 NA
+AAAAAAAAAAAAGCATTTTACTATTTTATATA 0.020 8.391e-01 8.394e-01 8.395e-01 -2.048e-01 1.010e+00 NA
+AAAAAAAAAAAAGCATTTTACTATTTTATA 0.025 4.947e-01 5.011e-01 4.958e-01 -6.217e-01 9.242e-01 NA
+AAAAAAAAAAAAGCATTTTACTATTTTGTATATATATAT 0.010 8.864e-01 8.872e-01 7.279e-02 -2.017e-01 1.421e+00 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTGTATATATATA 0.010 8.864e-01 8.872e-01 7.279e-02 -2.017e-01 1.421e+00 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTGTATATATAT 0.010 8.864e-01 8.872e-01 7.279e-02 -2.017e-01 1.421e+00 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTGTATATATA 0.010 8.864e-01 8.872e-01 7.279e-02 -2.017e-01 1.421e+00 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTGTATAT 0.010 8.864e-01 8.872e-01 7.279e-02 -2.017e-01 1.421e+00 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTG 0.010 8.864e-01 8.872e-01 7.279e-02 -2.017e-01 1.421e+00 bad-chisq
+AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTAA 0.115 2.951e-01 2.984e-01 2.906e-01 4.815e-01 4.630e-01 NA
+AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.115 2.951e-01 2.984e-01 2.906e-01 4.815e-01 4.630e-01 NA
+AAAAAAAAAAAAGTGTTAAAATAAA 0.120 2.207e-01 2.249e-01 2.155e-01 5.566e-01 4.586e-01 NA
+AAAAAAAAAAAAGTGTTAAAA 0.120 2.207e-01 2.249e-01 2.155e-01 5.566e-01 4.586e-01 NA
+AAAAAAAAAAAAGTG 0.120 2.207e-01 2.249e-01 2.155e-01 5.566e-01 4.586e-01 NA
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGAG 0.050 2.246e-02 6.522e-02 1.553e-03 1.720e+00 9.329e-01 bad-chisq
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.050 2.246e-02 6.522e-02 1.553e-03 1.720e+00 9.329e-01 bad-chisq
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.050 2.246e-02 6.522e-02 1.553e-03 1.720e+00 9.329e-01 bad-chisq
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.055 1.379e-02 4.747e-02 8.661e-04 1.830e+00 9.233e-01 bad-chisq
+AAAAAAAAAAAAGTTCAAAATGCA 0.055 1.379e-02 4.747e-02 8.661e-04 1.830e+00 9.233e-01 bad-chisq
+AAAAAAAAAAAAGTTCAAAATG 0.055 1.379e-02 4.747e-02 8.661e-04 1.830e+00 9.233e-01 bad-chisq
+AAAAAAAAAAAAGTTCAAAAT 0.055 1.379e-02 4.747e-02 8.661e-04 1.830e+00 9.233e-01 bad-chisq
+AAAAAAAAAAAAGTT 0.060 4.186e-02 6.017e-02 3.225e-02 1.482e+00 7.883e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.290 3.637e-01 3.643e-01 3.643e-01 -2.836e-01 3.126e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.295 4.451e-01 4.455e-01 4.456e-01 -2.373e-01 3.110e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.295 4.451e-01 4.455e-01 4.456e-01 -2.373e-01 3.110e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGT 0.295 4.451e-01 4.455e-01 4.456e-01 -2.373e-01 3.110e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.295 4.451e-01 4.455e-01 4.456e-01 -2.373e-01 3.110e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.295 4.451e-01 4.455e-01 4.456e-01 -2.373e-01 3.110e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.025 2.551e-01 3.752e-01 2.321e-02 9.247e-01 1.043e+00 bad-chisq
+AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.025 2.551e-01 3.752e-01 2.321e-02 9.247e-01 1.043e+00 bad-chisq
+AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.025 2.551e-01 3.752e-01 2.321e-02 9.247e-01 1.043e+00 bad-chisq
+AAAAAAAAAAAGAAAGATAGTTTAACCTATGAAAAAATCACTAAAAATTTTTGCTACATCTAAATAGTTTGACCTCTTCGGGGTTGCTTTGGTCGTTGGG 0.060 1.197e-01 1.315e-01 1.192e-01 -9.499e-01 6.298e-01 NA
+AAAAAAAAAAAGAAAG 0.060 1.197e-01 1.315e-01 1.192e-01 -9.499e-01 6.298e-01 NA
+AAAAAAAAAAAGAAA 0.085 6.398e-03 1.125e-02 5.745e-03 -1.498e+00 5.911e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATAT 0.010 1.986e-01 4.529e-01 3.831e-02 1.428e+00 1.903e+00 bad-chisq
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATCATAAGATAAGTTTTTTATAAAGACACGCAAATGAGTATAAATCAGCTAATTTT 0.010 1.986e-01 4.529e-01 3.831e-02 1.428e+00 1.903e+00 bad-chisq
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATAT 0.035 9.076e-01 9.077e-01 9.075e-01 9.015e-02 7.773e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATA 0.035 9.076e-01 9.077e-01 9.075e-01 9.015e-02 7.773e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATAT 0.045 4.716e-01 4.759e-01 4.661e-01 5.147e-01 7.219e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATA 0.045 4.716e-01 4.759e-01 4.661e-01 5.147e-01 7.219e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATAT 0.060 4.021e-01 4.066e-01 3.964e-01 5.225e-01 6.296e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATA 0.060 4.021e-01 4.066e-01 3.964e-01 5.225e-01 6.296e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATAT 0.080 2.491e-01 2.555e-01 2.420e-01 6.360e-01 5.593e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATA 0.080 2.491e-01 2.555e-01 2.420e-01 6.360e-01 5.593e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATAT 0.095 8.528e-02 9.382e-02 7.808e-02 9.079e-01 5.419e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATA 0.100 1.552e-01 1.619e-01 1.484e-01 7.138e-01 5.103e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATTATAAGATAAGTTTTTTATAAAGACACGCAAATGAGTATAAATCAGCTAATTTTTGGTTTA 0.015 5.368e-02 2.134e-01 9.041e-03 -2.179e+00 1.752e+00 bad-chisq
+AAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.115 5.475e-01 5.484e-01 5.457e-01 2.719e-01 4.531e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.115 5.475e-01 5.484e-01 5.457e-01 2.719e-01 4.531e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATA 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATAT 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATA 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATAT 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATA 0.125 9.144e-01 9.144e-01 9.144e-01 4.626e-02 4.306e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTA 0.125 9.144e-01 9.144e-01 9.144e-01 4.626e-02 4.306e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTGTATATATATATATATAT 0.055 6.589e-02 8.577e-02 5.410e-02 1.366e+00 7.952e-01 NA
diff --git a/test/map_in.txt b/test/map_in.txt
index 31a2264..effe392 100644
--- a/test/map_in.txt
+++ b/test/map_in.txt
@@ -1,2 +1,2 @@
-sequence maf unadj_p_val p_val beta se covar1_p covar2_p covar3_p comments
-AAAAAAAAAAAAAAAAAAAT 0.055 1.379e-02 4.776e-02 1.819e+00 9.189e-01 4.800e-01 9.382e-01 9.666e-01 bad-chisq 6259_5_16
+sequence maf chisq_p_val wald_p_val lrt_p_val beta se covar1_p covar2_p covar3_p comments samples_present
+AAAAAAAAAAAAAAAAAAAT 0.055 1.379e-02 4.776e-02 8.661e-04 1.819e+00 9.189e-01 4.800e-01 9.382e-01 9.666e-01 bad-chisq 6259_5_16
diff --git a/test/test1.e.txt b/test/test1.e.txt
index c831bd1..7a3453d 100644
--- a/test/test1.e.txt
+++ b/test/test1.e.txt
@@ -1,6 +1,7 @@
seer: sequence element enrichment analysis
Detected binary phenotype
-Read 201 total k-mers. Of these:
- Filtered 201 k-mers
+Read 200 total k-mers. Of these:
+ Pre-filtered 200 k-mers
Tested 0 k-mers
+ Printed 0 k-mers
Done.
diff --git a/test/test1.o.txt b/test/test1.o.txt
index a4cb8d1..9a7e047 100644
--- a/test/test1.o.txt
+++ b/test/test1.o.txt
@@ -1 +1 @@
-sequence maf unadj_p_val p_val beta se comments
+sequence maf chisq_p_val wald_p_val lrt_p_val beta se comments
diff --git a/test/test2.e.txt b/test/test2.e.txt
index 1cbf1e4..ab095aa 100644
--- a/test/test2.e.txt
+++ b/test/test2.e.txt
@@ -1,6 +1,7 @@
seer: sequence element enrichment analysis
Detected binary phenotype
-Read 201 total k-mers. Of these:
- Filtered 27 k-mers
+Read 200 total k-mers. Of these:
+ Pre-filtered 26 k-mers
Tested 174 k-mers
+ Printed 174 k-mers
Done.
diff --git a/test/test2.o.txt b/test/test2.o.txt
index 3df1e97..2708bf2 100644
--- a/test/test2.o.txt
+++ b/test/test2.o.txt
@@ -1,175 +1,175 @@
-sequence maf unadj_p_val p_val beta se comments
-AAAAAAAAAAAAAAAAAAAT 0.055 1.379e-02 4.747e-02 1.830e+00 9.233e-01 bad-chisq
-AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAA 0.080 6.443e-03 1.580e-02 1.859e+00 7.702e-01 NA
-AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.080 6.443e-03 1.580e-02 1.859e+00 7.702e-01 NA
-AAAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.080 6.443e-03 1.580e-02 1.859e+00 7.702e-01 NA
-AAAAAAAAAAAAAAAAAATGCATATTTATCTT 0.085 3.982e-03 1.152e-02 1.938e+00 7.672e-01 NA
-AAAAAAAAAAAAAAAAAATGCATATTTATCT 0.085 3.982e-03 1.152e-02 1.938e+00 7.672e-01 NA
-AAAAAAAAAAAAAAAAAATGCATATTTAT 0.085 3.982e-03 1.152e-02 1.938e+00 7.672e-01 NA
-AAAAAAAAAAAAAAAAAATGCATAT 0.085 3.982e-03 1.152e-02 1.938e+00 7.672e-01 NA
-AAAAAAAAAAAAAAAAAATGCAT 0.085 3.982e-03 1.152e-02 1.938e+00 7.672e-01 NA
-AAAAAAAAAAAAAAAAAATGCA 0.085 3.982e-03 1.152e-02 1.938e+00 7.672e-01 NA
-AAAAAAAAAAAAAAAAAATG 0.085 3.982e-03 1.152e-02 1.938e+00 7.672e-01 NA
-AAAAAAAAAAAAAAAAAAT 0.100 1.784e-02 2.494e-02 1.297e+00 5.786e-01 NA
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAG 0.100 1.784e-02 2.494e-02 1.297e+00 5.786e-01 NA
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.100 1.784e-02 2.494e-02 1.297e+00 5.786e-01 NA
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.100 1.784e-02 2.494e-02 1.297e+00 5.786e-01 NA
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.115 4.668e-03 8.463e-03 1.502e+00 5.703e-01 NA
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.115 4.668e-03 8.463e-03 1.502e+00 5.703e-01 NA
-AAAAAAAAAAAAAAAAATGCATATTTATCTT 0.120 2.937e-03 5.905e-03 1.564e+00 5.681e-01 NA
-AAAAAAAAAAAAAAAAATGCATATTTATCT 0.120 2.937e-03 5.905e-03 1.564e+00 5.681e-01 NA
-AAAAAAAAAAAAAAAAATGCATATTTAT 0.130 4.631e-03 7.579e-03 1.389e+00 5.202e-01 NA
-AAAAAAAAAAAAAAAAATGCATAT 0.130 4.631e-03 7.579e-03 1.389e+00 5.202e-01 NA
-AAAAAAAAAAAAAAAAATGCAT 0.130 4.631e-03 7.579e-03 1.389e+00 5.202e-01 NA
-AAAAAAAAAAAAAAAAATGCA 0.130 4.631e-03 7.579e-03 1.389e+00 5.202e-01 NA
-AAAAAAAAAAAAAAAAATG 0.130 4.631e-03 7.579e-03 1.389e+00 5.202e-01 NA
-AAAAAAAAAAAAAAAAAT 0.145 1.460e-02 1.820e-02 1.087e+00 4.601e-01 NA
-AAAAAAAAAAAAAAAAA 0.175 3.743e-03 5.267e-03 1.204e+00 4.316e-01 NA
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGT 0.140 2.869e-01 2.895e-01 4.480e-01 4.230e-01 NA
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.140 2.869e-01 2.895e-01 4.480e-01 4.230e-01 NA
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.140 2.869e-01 2.895e-01 4.480e-01 4.230e-01 NA
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.140 2.869e-01 2.895e-01 4.480e-01 4.230e-01 NA
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.155 1.208e-01 1.248e-01 6.353e-01 4.140e-01 NA
-AAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.185 3.320e-01 3.335e-01 3.613e-01 3.736e-01 NA
-AAAAAAAAAAAAAAAATGCATATTTATCTT 0.190 2.614e-01 2.633e-01 4.154e-01 3.713e-01 NA
-AAAAAAAAAAAAAAAATGCATATTTATCT 0.190 2.614e-01 2.633e-01 4.154e-01 3.713e-01 NA
-AAAAAAAAAAAAAAAATGCATATTTAT 0.200 2.864e-01 2.880e-01 3.857e-01 3.630e-01 NA
-AAAAAAAAAAAAAAAATGCATAT 0.200 2.864e-01 2.880e-01 3.857e-01 3.630e-01 NA
-AAAAAAAAAAAAAAAATGCAT 0.200 2.864e-01 2.880e-01 3.857e-01 3.630e-01 NA
-AAAAAAAAAAAAAAAATGCA 0.200 2.864e-01 2.880e-01 3.857e-01 3.630e-01 NA
-AAAAAAAAAAAAAAAATG 0.200 2.864e-01 2.880e-01 3.857e-01 3.630e-01 NA
-AAAAAAAAAAAAAAAAT 0.215 4.162e-01 4.170e-01 2.845e-01 3.506e-01 NA
-AAAAAAAAAAAAAAAA 0.250 1.396e-01 1.415e-01 4.953e-01 3.369e-01 NA
-AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGC 0.065 1.003e-01 1.144e-01 1.065e+00 6.744e-01 NA
-AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.065 1.003e-01 1.144e-01 1.065e+00 6.744e-01 NA
-AAAAAAAAAAAAAAAGTGTTAAAATAAA 0.070 6.602e-02 7.971e-02 1.170e+00 6.677e-01 NA
-AAAAAAAAAAAAAAAGTGTTAAAA 0.070 6.602e-02 7.971e-02 1.170e+00 6.677e-01 NA
-AAAAAAAAAAAAAAAGT 0.075 4.301e-02 5.562e-02 1.267e+00 6.621e-01 NA
-AAAAAAAAAAAAAAAG 0.090 4.172e-02 5.119e-02 1.143e+00 5.861e-01 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.185 1.815e-01 1.842e-01 5.026e-01 3.784e-01 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.185 1.815e-01 1.842e-01 5.026e-01 3.784e-01 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.185 1.815e-01 1.842e-01 5.026e-01 3.784e-01 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.185 1.815e-01 1.842e-01 5.026e-01 3.784e-01 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.190 1.374e-01 1.403e-01 5.551e-01 3.764e-01 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.190 1.374e-01 1.403e-01 5.551e-01 3.764e-01 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.190 1.374e-01 1.403e-01 5.551e-01 3.764e-01 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.190 1.374e-01 1.403e-01 5.551e-01 3.764e-01 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.210 8.728e-02 8.998e-02 6.172e-01 3.640e-01 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.020 6.763e-02 2.239e-01 2.034e+00 1.673e+00 bad-chisq
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.239e-01 2.034e+00 1.673e+00 bad-chisq
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.239e-01 2.034e+00 1.673e+00 bad-chisq
-AAAAAAAAAAAAAAA 0.385 1.865e-03 2.107e-03 9.388e-01 3.053e-01 NA
-AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCT 0.105 2.560e-01 2.604e-01 5.476e-01 4.866e-01 NA
-AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.105 2.560e-01 2.604e-01 5.476e-01 4.866e-01 NA
-AAAAAAAAAAAAAAGTGTTAAAATAAA 0.110 1.877e-01 1.930e-01 6.271e-01 4.818e-01 NA
-AAAAAAAAAAAAAAGTGTTAAAA 0.110 1.877e-01 1.930e-01 6.271e-01 4.818e-01 NA
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATG 0.040 5.932e-02 1.271e-01 1.464e+00 9.597e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.040 5.932e-02 1.271e-01 1.464e+00 9.597e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.040 5.932e-02 1.271e-01 1.464e+00 9.597e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.045 3.651e-02 9.054e-02 1.599e+00 9.447e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAATG 0.045 3.651e-02 9.054e-02 1.599e+00 9.447e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAAT 0.045 3.651e-02 9.054e-02 1.599e+00 9.447e-01 bad-chisq
-AAAAAAAAAAAAAAGT 0.165 8.715e-03 1.113e-02 1.104e+00 4.347e-01 NA
-AAAAAAAAAAAAAAG 0.185 1.493e-02 1.734e-02 9.564e-01 4.020e-01 NA
-AAAAAAAAAAAAAATGCATATTTATATTAGCAAAA 0.125 1.834e-03 4.123e-03 1.624e+00 5.661e-01 NA
-AAAAAAAAAAAAAATGCATATTTATATTAG 0.125 1.834e-03 4.123e-03 1.624e+00 5.661e-01 NA
-AAAAAAAAAAAAAATGCATATTTATATTA 0.130 1.137e-03 2.881e-03 1.682e+00 5.643e-01 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.205 3.884e-01 3.894e-01 3.077e-01 3.575e-01 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.205 3.884e-01 3.894e-01 3.077e-01 3.575e-01 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.205 3.884e-01 3.894e-01 3.077e-01 3.575e-01 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.205 3.884e-01 3.894e-01 3.077e-01 3.575e-01 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.210 3.115e-01 3.129e-01 3.588e-01 3.555e-01 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.210 3.115e-01 3.129e-01 3.588e-01 3.555e-01 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.210 3.115e-01 3.129e-01 3.588e-01 3.555e-01 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.210 3.115e-01 3.129e-01 3.588e-01 3.555e-01 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.230 2.114e-01 2.132e-01 4.301e-01 3.455e-01 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.020 6.763e-02 2.239e-01 2.034e+00 1.673e+00 bad-chisq
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.239e-01 2.034e+00 1.673e+00 bad-chisq
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.239e-01 2.034e+00 1.673e+00 bad-chisq
-AAAAAAAAAAAAAATGCA 0.410 1.633e-03 1.834e-03 9.372e-01 3.008e-01 NA
-AAAAAAAAAAAAAAT 0.450 6.645e-03 7.038e-03 7.893e-01 2.929e-01 NA
-AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTA 0.115 2.951e-01 2.984e-01 4.815e-01 4.630e-01 NA
-AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.115 2.951e-01 2.984e-01 4.815e-01 4.630e-01 NA
-AAAAAAAAAAAAAGTGTTAAAATAAA 0.120 2.207e-01 2.249e-01 5.566e-01 4.586e-01 NA
-AAAAAAAAAAAAAGTGTTAAAA 0.120 2.207e-01 2.249e-01 5.566e-01 4.586e-01 NA
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGA 0.045 3.651e-02 9.054e-02 1.599e+00 9.447e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.045 3.651e-02 9.054e-02 1.599e+00 9.447e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.045 3.651e-02 9.054e-02 1.599e+00 9.447e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.050 2.246e-02 6.522e-02 1.720e+00 9.329e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAATG 0.050 2.246e-02 6.522e-02 1.720e+00 9.329e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAAT 0.050 2.246e-02 6.522e-02 1.720e+00 9.329e-01 bad-chisq
-AAAAAAAAAAAAAGTT 0.055 6.589e-02 8.577e-02 1.366e+00 7.952e-01 NA
-AAAAAAAAAAAAAGT 0.195 6.759e-03 8.383e-03 1.052e+00 3.992e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.245 9.868e-01 9.868e-01 5.461e-03 3.305e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.245 9.868e-01 9.868e-01 5.461e-03 3.305e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.245 9.868e-01 9.868e-01 5.461e-03 3.305e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.245 9.868e-01 9.868e-01 5.461e-03 3.305e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.250 8.696e-01 8.696e-01 5.395e-02 3.287e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.250 8.696e-01 8.696e-01 5.395e-02 3.287e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.250 8.696e-01 8.696e-01 5.395e-02 3.287e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.250 8.696e-01 8.696e-01 5.395e-02 3.287e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.270 6.773e-01 6.774e-01 1.337e-01 3.214e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.020 6.763e-02 2.239e-01 2.034e+00 1.673e+00 bad-chisq
-AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.239e-01 2.034e+00 1.673e+00 bad-chisq
-AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.239e-01 2.034e+00 1.673e+00 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.015 6.823e-01 7.910e-01 3.183e-01 1.201e+00 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.015 6.823e-01 7.910e-01 3.183e-01 1.201e+00 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.020 8.391e-01 8.394e-01 -2.048e-01 1.010e+00 NA
-AAAAAAAAAAAAGCATTTTACTATTTTATATATA 0.020 8.391e-01 8.394e-01 -2.048e-01 1.010e+00 NA
-AAAAAAAAAAAAGCATTTTACTATTTTATATAT 0.020 8.391e-01 8.394e-01 -2.048e-01 1.010e+00 NA
-AAAAAAAAAAAAGCATTTTACTATTTTATATA 0.020 8.391e-01 8.394e-01 -2.048e-01 1.010e+00 NA
-AAAAAAAAAAAAGCATTTTACTATTTTATA 0.025 4.947e-01 5.011e-01 -6.217e-01 9.242e-01 NA
-AAAAAAAAAAAAGCATTTTACTATTTTGTATATATATAT 0.010 8.864e-01 8.872e-01 -2.017e-01 1.421e+00 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTGTATATATATA 0.010 8.864e-01 8.872e-01 -2.017e-01 1.421e+00 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTGTATATATAT 0.010 8.864e-01 8.872e-01 -2.017e-01 1.421e+00 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTGTATATATA 0.010 8.864e-01 8.872e-01 -2.017e-01 1.421e+00 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTGTATAT 0.010 8.864e-01 8.872e-01 -2.017e-01 1.421e+00 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTG 0.010 8.864e-01 8.872e-01 -2.017e-01 1.421e+00 bad-chisq
-AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTAA 0.115 2.951e-01 2.984e-01 4.815e-01 4.630e-01 NA
-AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.115 2.951e-01 2.984e-01 4.815e-01 4.630e-01 NA
-AAAAAAAAAAAAGTGTTAAAATAAA 0.120 2.207e-01 2.249e-01 5.566e-01 4.586e-01 NA
-AAAAAAAAAAAAGTGTTAAAA 0.120 2.207e-01 2.249e-01 5.566e-01 4.586e-01 NA
-AAAAAAAAAAAAGTG 0.120 2.207e-01 2.249e-01 5.566e-01 4.586e-01 NA
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGAG 0.050 2.246e-02 6.522e-02 1.720e+00 9.329e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.050 2.246e-02 6.522e-02 1.720e+00 9.329e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.050 2.246e-02 6.522e-02 1.720e+00 9.329e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.055 1.379e-02 4.747e-02 1.830e+00 9.233e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATGCA 0.055 1.379e-02 4.747e-02 1.830e+00 9.233e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATG 0.055 1.379e-02 4.747e-02 1.830e+00 9.233e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAAT 0.055 1.379e-02 4.747e-02 1.830e+00 9.233e-01 bad-chisq
-AAAAAAAAAAAAGTT 0.060 4.186e-02 6.017e-02 1.482e+00 7.883e-01 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.290 3.637e-01 3.643e-01 -2.836e-01 3.126e-01 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.295 4.451e-01 4.455e-01 -2.373e-01 3.110e-01 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.295 4.451e-01 4.455e-01 -2.373e-01 3.110e-01 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGT 0.295 4.451e-01 4.455e-01 -2.373e-01 3.110e-01 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.295 4.451e-01 4.455e-01 -2.373e-01 3.110e-01 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.295 4.451e-01 4.455e-01 -2.373e-01 3.110e-01 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.025 2.551e-01 3.752e-01 9.247e-01 1.043e+00 bad-chisq
-AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.025 2.551e-01 3.752e-01 9.247e-01 1.043e+00 bad-chisq
-AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.025 2.551e-01 3.752e-01 9.247e-01 1.043e+00 bad-chisq
-AAAAAAAAAAAGAAAGATAGTTTAACCTATGAAAAAATCACTAAAAATTTTTGCTACATCTAAATAGTTTGACCTCTTCGGGGTTGCTTTGGTCGTTGGG 0.060 1.197e-01 1.315e-01 -9.499e-01 6.298e-01 NA
-AAAAAAAAAAAGAAAG 0.060 1.197e-01 1.315e-01 -9.499e-01 6.298e-01 NA
-AAAAAAAAAAAGAAA 0.085 6.398e-03 1.125e-02 -1.498e+00 5.911e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATAT 0.010 1.986e-01 4.529e-01 1.428e+00 1.903e+00 bad-chisq
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATCATAAGATAAGTTTTTTATAAAGACACGCAAATGAGTATAAATCAGCTAATTTT 0.010 1.986e-01 4.529e-01 1.428e+00 1.903e+00 bad-chisq
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATAT 0.035 9.076e-01 9.077e-01 9.015e-02 7.773e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATA 0.035 9.076e-01 9.077e-01 9.015e-02 7.773e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATAT 0.045 4.716e-01 4.759e-01 5.147e-01 7.219e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATA 0.045 4.716e-01 4.759e-01 5.147e-01 7.219e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATAT 0.060 4.021e-01 4.066e-01 5.225e-01 6.296e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATA 0.060 4.021e-01 4.066e-01 5.225e-01 6.296e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATAT 0.080 2.491e-01 2.555e-01 6.360e-01 5.593e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATA 0.080 2.491e-01 2.555e-01 6.360e-01 5.593e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATAT 0.095 8.528e-02 9.382e-02 9.079e-01 5.419e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATA 0.100 1.552e-01 1.619e-01 7.138e-01 5.103e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATTATAAGATAAGTTTTTTATAAAGACACGCAAATGAGTATAAATCAGCTAATTTTTGGTTTA 0.015 5.368e-02 2.134e-01 -2.179e+00 1.752e+00 bad-chisq
-AAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.115 5.475e-01 5.484e-01 2.719e-01 4.531e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.115 5.475e-01 5.484e-01 2.719e-01 4.531e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.120 7.264e-01 7.266e-01 1.542e-01 4.408e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTATATATA 0.120 7.264e-01 7.266e-01 1.542e-01 4.408e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTATATAT 0.120 7.264e-01 7.266e-01 1.542e-01 4.408e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTATATA 0.120 7.264e-01 7.266e-01 1.542e-01 4.408e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTATAT 0.120 7.264e-01 7.266e-01 1.542e-01 4.408e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTATA 0.125 9.144e-01 9.144e-01 4.626e-02 4.306e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTA 0.125 9.144e-01 9.144e-01 4.626e-02 4.306e-01 NA
-AAAAAAAAAAAGCATTTTACTATTTTGTATATATATATATATAT 0.055 6.589e-02 8.577e-02 1.366e+00 7.952e-01 NA
+sequence maf chisq_p_val wald_p_val lrt_p_val beta se comments
+AAAAAAAAAAAAAAAAAAAT 0.055 1.379e-02 4.747e-02 8.661e-04 1.830e+00 9.233e-01 bad-chisq
+AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAA 0.080 6.443e-03 1.580e-02 3.613e-03 1.859e+00 7.702e-01 NA
+AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.080 6.443e-03 1.580e-02 3.613e-03 1.859e+00 7.702e-01 NA
+AAAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.080 6.443e-03 1.580e-02 3.613e-03 1.859e+00 7.702e-01 NA
+AAAAAAAAAAAAAAAAAATGCATATTTATCTT 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01 NA
+AAAAAAAAAAAAAAAAAATGCATATTTATCT 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01 NA
+AAAAAAAAAAAAAAAAAATGCATATTTAT 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01 NA
+AAAAAAAAAAAAAAAAAATGCATAT 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01 NA
+AAAAAAAAAAAAAAAAAATGCAT 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01 NA
+AAAAAAAAAAAAAAAAAATGCA 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01 NA
+AAAAAAAAAAAAAAAAAATG 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01 NA
+AAAAAAAAAAAAAAAAAAT 0.100 1.784e-02 2.494e-02 1.381e-02 1.297e+00 5.786e-01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAG 0.100 1.784e-02 2.494e-02 1.381e-02 1.297e+00 5.786e-01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.100 1.784e-02 2.494e-02 1.381e-02 1.297e+00 5.786e-01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.100 1.784e-02 2.494e-02 1.381e-02 1.297e+00 5.786e-01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.115 4.668e-03 8.463e-03 3.064e-03 1.502e+00 5.703e-01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.115 4.668e-03 8.463e-03 3.064e-03 1.502e+00 5.703e-01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCTT 0.120 2.937e-03 5.905e-03 1.811e-03 1.564e+00 5.681e-01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCT 0.120 2.937e-03 5.905e-03 1.811e-03 1.564e+00 5.681e-01 NA
+AAAAAAAAAAAAAAAAATGCATATTTAT 0.130 4.631e-03 7.579e-03 3.225e-03 1.389e+00 5.202e-01 NA
+AAAAAAAAAAAAAAAAATGCATAT 0.130 4.631e-03 7.579e-03 3.225e-03 1.389e+00 5.202e-01 NA
+AAAAAAAAAAAAAAAAATGCAT 0.130 4.631e-03 7.579e-03 3.225e-03 1.389e+00 5.202e-01 NA
+AAAAAAAAAAAAAAAAATGCA 0.130 4.631e-03 7.579e-03 3.225e-03 1.389e+00 5.202e-01 NA
+AAAAAAAAAAAAAAAAATG 0.130 4.631e-03 7.579e-03 3.225e-03 1.389e+00 5.202e-01 NA
+AAAAAAAAAAAAAAAAAT 0.145 1.460e-02 1.820e-02 1.214e-02 1.087e+00 4.601e-01 NA
+AAAAAAAAAAAAAAAAA 0.175 3.743e-03 5.267e-03 2.860e-03 1.204e+00 4.316e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGT 0.140 2.869e-01 2.895e-01 2.830e-01 4.480e-01 4.230e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.140 2.869e-01 2.895e-01 2.830e-01 4.480e-01 4.230e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.140 2.869e-01 2.895e-01 2.830e-01 4.480e-01 4.230e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.140 2.869e-01 2.895e-01 2.830e-01 4.480e-01 4.230e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.155 1.208e-01 1.248e-01 1.164e-01 6.353e-01 4.140e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.185 3.320e-01 3.335e-01 3.295e-01 3.613e-01 3.736e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTT 0.190 2.614e-01 2.633e-01 2.584e-01 4.154e-01 3.713e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCT 0.190 2.614e-01 2.633e-01 2.584e-01 4.154e-01 3.713e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTAT 0.200 2.864e-01 2.880e-01 2.838e-01 3.857e-01 3.630e-01 NA
+AAAAAAAAAAAAAAAATGCATAT 0.200 2.864e-01 2.880e-01 2.838e-01 3.857e-01 3.630e-01 NA
+AAAAAAAAAAAAAAAATGCAT 0.200 2.864e-01 2.880e-01 2.838e-01 3.857e-01 3.630e-01 NA
+AAAAAAAAAAAAAAAATGCA 0.200 2.864e-01 2.880e-01 2.838e-01 3.857e-01 3.630e-01 NA
+AAAAAAAAAAAAAAAATG 0.200 2.864e-01 2.880e-01 2.838e-01 3.857e-01 3.630e-01 NA
+AAAAAAAAAAAAAAAAT 0.215 4.162e-01 4.170e-01 4.146e-01 2.845e-01 3.506e-01 NA
+AAAAAAAAAAAAAAAA 0.250 1.396e-01 1.415e-01 1.372e-01 4.953e-01 3.369e-01 NA
+AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGC 0.065 1.003e-01 1.144e-01 8.982e-02 1.065e+00 6.744e-01 NA
+AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.065 1.003e-01 1.144e-01 8.982e-02 1.065e+00 6.744e-01 NA
+AAAAAAAAAAAAAAAGTGTTAAAATAAA 0.070 6.602e-02 7.971e-02 5.670e-02 1.170e+00 6.677e-01 NA
+AAAAAAAAAAAAAAAGTGTTAAAA 0.070 6.602e-02 7.971e-02 5.670e-02 1.170e+00 6.677e-01 NA
+AAAAAAAAAAAAAAAGT 0.075 4.301e-02 5.562e-02 3.524e-02 1.267e+00 6.621e-01 NA
+AAAAAAAAAAAAAAAG 0.090 4.172e-02 5.119e-02 3.531e-02 1.143e+00 5.861e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.185 1.815e-01 1.842e-01 1.780e-01 5.026e-01 3.784e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.185 1.815e-01 1.842e-01 1.780e-01 5.026e-01 3.784e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.185 1.815e-01 1.842e-01 1.780e-01 5.026e-01 3.784e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.185 1.815e-01 1.842e-01 1.780e-01 5.026e-01 3.784e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.190 1.374e-01 1.403e-01 1.339e-01 5.551e-01 3.764e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.190 1.374e-01 1.403e-01 1.339e-01 5.551e-01 3.764e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.190 1.374e-01 1.403e-01 1.339e-01 5.551e-01 3.764e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.190 1.374e-01 1.403e-01 1.339e-01 5.551e-01 3.764e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.210 8.728e-02 8.998e-02 8.421e-02 6.172e-01 3.640e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00 bad-chisq
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00 bad-chisq
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00 bad-chisq
+AAAAAAAAAAAAAAA 0.385 1.865e-03 2.107e-03 1.697e-03 9.388e-01 3.053e-01 NA
+AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCT 0.105 2.560e-01 2.604e-01 2.506e-01 5.476e-01 4.866e-01 NA
+AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.105 2.560e-01 2.604e-01 2.506e-01 5.476e-01 4.866e-01 NA
+AAAAAAAAAAAAAAGTGTTAAAATAAA 0.110 1.877e-01 1.930e-01 1.818e-01 6.271e-01 4.818e-01 NA
+AAAAAAAAAAAAAAGTGTTAAAA 0.110 1.877e-01 1.930e-01 1.818e-01 6.271e-01 4.818e-01 NA
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATG 0.040 5.932e-02 1.271e-01 4.825e-03 1.464e+00 9.597e-01 bad-chisq
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.040 5.932e-02 1.271e-01 4.825e-03 1.464e+00 9.597e-01 bad-chisq
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.040 5.932e-02 1.271e-01 4.825e-03 1.464e+00 9.597e-01 bad-chisq
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.045 3.651e-02 9.054e-02 2.755e-03 1.599e+00 9.447e-01 bad-chisq
+AAAAAAAAAAAAAAGTTCAAAATG 0.045 3.651e-02 9.054e-02 2.755e-03 1.599e+00 9.447e-01 bad-chisq
+AAAAAAAAAAAAAAGTTCAAAAT 0.045 3.651e-02 9.054e-02 2.755e-03 1.599e+00 9.447e-01 bad-chisq
+AAAAAAAAAAAAAAGT 0.165 8.715e-03 1.113e-02 7.115e-03 1.104e+00 4.347e-01 NA
+AAAAAAAAAAAAAAG 0.185 1.493e-02 1.734e-02 1.304e-02 9.564e-01 4.020e-01 NA
+AAAAAAAAAAAAAATGCATATTTATATTAGCAAAA 0.125 1.834e-03 4.123e-03 1.059e-03 1.624e+00 5.661e-01 NA
+AAAAAAAAAAAAAATGCATATTTATATTAG 0.125 1.834e-03 4.123e-03 1.059e-03 1.624e+00 5.661e-01 NA
+AAAAAAAAAAAAAATGCATATTTATATTA 0.130 1.137e-03 2.881e-03 6.122e-04 1.682e+00 5.643e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.205 3.884e-01 3.894e-01 3.865e-01 3.077e-01 3.575e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.205 3.884e-01 3.894e-01 3.865e-01 3.077e-01 3.575e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.205 3.884e-01 3.894e-01 3.865e-01 3.077e-01 3.575e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.205 3.884e-01 3.894e-01 3.865e-01 3.077e-01 3.575e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.210 3.115e-01 3.129e-01 3.092e-01 3.588e-01 3.555e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.210 3.115e-01 3.129e-01 3.092e-01 3.588e-01 3.555e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.210 3.115e-01 3.129e-01 3.092e-01 3.588e-01 3.555e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.210 3.115e-01 3.129e-01 3.092e-01 3.588e-01 3.555e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.230 2.114e-01 2.132e-01 2.089e-01 4.301e-01 3.455e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00 bad-chisq
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00 bad-chisq
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00 bad-chisq
+AAAAAAAAAAAAAATGCA 0.410 1.633e-03 1.834e-03 1.499e-03 9.372e-01 3.008e-01 NA
+AAAAAAAAAAAAAAT 0.450 6.645e-03 7.038e-03 6.392e-03 7.893e-01 2.929e-01 NA
+AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTA 0.115 2.951e-01 2.984e-01 2.906e-01 4.815e-01 4.630e-01 NA
+AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.115 2.951e-01 2.984e-01 2.906e-01 4.815e-01 4.630e-01 NA
+AAAAAAAAAAAAAGTGTTAAAATAAA 0.120 2.207e-01 2.249e-01 2.155e-01 5.566e-01 4.586e-01 NA
+AAAAAAAAAAAAAGTGTTAAAA 0.120 2.207e-01 2.249e-01 2.155e-01 5.566e-01 4.586e-01 NA
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGA 0.045 3.651e-02 9.054e-02 2.755e-03 1.599e+00 9.447e-01 bad-chisq
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.045 3.651e-02 9.054e-02 2.755e-03 1.599e+00 9.447e-01 bad-chisq
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.045 3.651e-02 9.054e-02 2.755e-03 1.599e+00 9.447e-01 bad-chisq
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.050 2.246e-02 6.522e-02 1.553e-03 1.720e+00 9.329e-01 bad-chisq
+AAAAAAAAAAAAAGTTCAAAATG 0.050 2.246e-02 6.522e-02 1.553e-03 1.720e+00 9.329e-01 bad-chisq
+AAAAAAAAAAAAAGTTCAAAAT 0.050 2.246e-02 6.522e-02 1.553e-03 1.720e+00 9.329e-01 bad-chisq
+AAAAAAAAAAAAAGTT 0.055 6.589e-02 8.577e-02 5.410e-02 1.366e+00 7.952e-01 NA
+AAAAAAAAAAAAAGT 0.195 6.759e-03 8.383e-03 5.629e-03 1.052e+00 3.992e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.245 9.868e-01 9.868e-01 9.868e-01 5.461e-03 3.305e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.245 9.868e-01 9.868e-01 9.868e-01 5.461e-03 3.305e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.245 9.868e-01 9.868e-01 9.868e-01 5.461e-03 3.305e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.245 9.868e-01 9.868e-01 9.868e-01 5.461e-03 3.305e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.250 8.696e-01 8.696e-01 8.696e-01 5.395e-02 3.287e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.250 8.696e-01 8.696e-01 8.696e-01 5.395e-02 3.287e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.250 8.696e-01 8.696e-01 8.696e-01 5.395e-02 3.287e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.250 8.696e-01 8.696e-01 8.696e-01 5.395e-02 3.287e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.270 6.773e-01 6.774e-01 6.769e-01 1.337e-01 3.214e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00 bad-chisq
+AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00 bad-chisq
+AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.015 6.823e-01 7.910e-01 5.492e-02 3.183e-01 1.201e+00 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.015 6.823e-01 7.910e-01 5.492e-02 3.183e-01 1.201e+00 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.020 8.391e-01 8.394e-01 8.395e-01 -2.048e-01 1.010e+00 NA
+AAAAAAAAAAAAGCATTTTACTATTTTATATATA 0.020 8.391e-01 8.394e-01 8.395e-01 -2.048e-01 1.010e+00 NA
+AAAAAAAAAAAAGCATTTTACTATTTTATATAT 0.020 8.391e-01 8.394e-01 8.395e-01 -2.048e-01 1.010e+00 NA
+AAAAAAAAAAAAGCATTTTACTATTTTATATA 0.020 8.391e-01 8.394e-01 8.395e-01 -2.048e-01 1.010e+00 NA
+AAAAAAAAAAAAGCATTTTACTATTTTATA 0.025 4.947e-01 5.011e-01 4.958e-01 -6.217e-01 9.242e-01 NA
+AAAAAAAAAAAAGCATTTTACTATTTTGTATATATATAT 0.010 8.864e-01 8.872e-01 7.279e-02 -2.017e-01 1.421e+00 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTGTATATATATA 0.010 8.864e-01 8.872e-01 7.279e-02 -2.017e-01 1.421e+00 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTGTATATATAT 0.010 8.864e-01 8.872e-01 7.279e-02 -2.017e-01 1.421e+00 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTGTATATATA 0.010 8.864e-01 8.872e-01 7.279e-02 -2.017e-01 1.421e+00 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTGTATAT 0.010 8.864e-01 8.872e-01 7.279e-02 -2.017e-01 1.421e+00 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTG 0.010 8.864e-01 8.872e-01 7.279e-02 -2.017e-01 1.421e+00 bad-chisq
+AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTAA 0.115 2.951e-01 2.984e-01 2.906e-01 4.815e-01 4.630e-01 NA
+AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.115 2.951e-01 2.984e-01 2.906e-01 4.815e-01 4.630e-01 NA
+AAAAAAAAAAAAGTGTTAAAATAAA 0.120 2.207e-01 2.249e-01 2.155e-01 5.566e-01 4.586e-01 NA
+AAAAAAAAAAAAGTGTTAAAA 0.120 2.207e-01 2.249e-01 2.155e-01 5.566e-01 4.586e-01 NA
+AAAAAAAAAAAAGTG 0.120 2.207e-01 2.249e-01 2.155e-01 5.566e-01 4.586e-01 NA
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGAG 0.050 2.246e-02 6.522e-02 1.553e-03 1.720e+00 9.329e-01 bad-chisq
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.050 2.246e-02 6.522e-02 1.553e-03 1.720e+00 9.329e-01 bad-chisq
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.050 2.246e-02 6.522e-02 1.553e-03 1.720e+00 9.329e-01 bad-chisq
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.055 1.379e-02 4.747e-02 8.661e-04 1.830e+00 9.233e-01 bad-chisq
+AAAAAAAAAAAAGTTCAAAATGCA 0.055 1.379e-02 4.747e-02 8.661e-04 1.830e+00 9.233e-01 bad-chisq
+AAAAAAAAAAAAGTTCAAAATG 0.055 1.379e-02 4.747e-02 8.661e-04 1.830e+00 9.233e-01 bad-chisq
+AAAAAAAAAAAAGTTCAAAAT 0.055 1.379e-02 4.747e-02 8.661e-04 1.830e+00 9.233e-01 bad-chisq
+AAAAAAAAAAAAGTT 0.060 4.186e-02 6.017e-02 3.225e-02 1.482e+00 7.883e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.290 3.637e-01 3.643e-01 3.643e-01 -2.836e-01 3.126e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.295 4.451e-01 4.455e-01 4.456e-01 -2.373e-01 3.110e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.295 4.451e-01 4.455e-01 4.456e-01 -2.373e-01 3.110e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGT 0.295 4.451e-01 4.455e-01 4.456e-01 -2.373e-01 3.110e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.295 4.451e-01 4.455e-01 4.456e-01 -2.373e-01 3.110e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.295 4.451e-01 4.455e-01 4.456e-01 -2.373e-01 3.110e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.025 2.551e-01 3.752e-01 2.321e-02 9.247e-01 1.043e+00 bad-chisq
+AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.025 2.551e-01 3.752e-01 2.321e-02 9.247e-01 1.043e+00 bad-chisq
+AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.025 2.551e-01 3.752e-01 2.321e-02 9.247e-01 1.043e+00 bad-chisq
+AAAAAAAAAAAGAAAGATAGTTTAACCTATGAAAAAATCACTAAAAATTTTTGCTACATCTAAATAGTTTGACCTCTTCGGGGTTGCTTTGGTCGTTGGG 0.060 1.197e-01 1.315e-01 1.192e-01 -9.499e-01 6.298e-01 NA
+AAAAAAAAAAAGAAAG 0.060 1.197e-01 1.315e-01 1.192e-01 -9.499e-01 6.298e-01 NA
+AAAAAAAAAAAGAAA 0.085 6.398e-03 1.125e-02 5.745e-03 -1.498e+00 5.911e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATAT 0.010 1.986e-01 4.529e-01 3.831e-02 1.428e+00 1.903e+00 bad-chisq
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATCATAAGATAAGTTTTTTATAAAGACACGCAAATGAGTATAAATCAGCTAATTTT 0.010 1.986e-01 4.529e-01 3.831e-02 1.428e+00 1.903e+00 bad-chisq
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATAT 0.035 9.076e-01 9.077e-01 9.075e-01 9.015e-02 7.773e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATA 0.035 9.076e-01 9.077e-01 9.075e-01 9.015e-02 7.773e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATAT 0.045 4.716e-01 4.759e-01 4.661e-01 5.147e-01 7.219e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATA 0.045 4.716e-01 4.759e-01 4.661e-01 5.147e-01 7.219e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATAT 0.060 4.021e-01 4.066e-01 3.964e-01 5.225e-01 6.296e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATA 0.060 4.021e-01 4.066e-01 3.964e-01 5.225e-01 6.296e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATAT 0.080 2.491e-01 2.555e-01 2.420e-01 6.360e-01 5.593e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATA 0.080 2.491e-01 2.555e-01 2.420e-01 6.360e-01 5.593e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATAT 0.095 8.528e-02 9.382e-02 7.808e-02 9.079e-01 5.419e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATA 0.100 1.552e-01 1.619e-01 1.484e-01 7.138e-01 5.103e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATTATAAGATAAGTTTTTTATAAAGACACGCAAATGAGTATAAATCAGCTAATTTTTGGTTTA 0.015 5.368e-02 2.134e-01 9.041e-03 -2.179e+00 1.752e+00 bad-chisq
+AAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.115 5.475e-01 5.484e-01 5.457e-01 2.719e-01 4.531e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.115 5.475e-01 5.484e-01 5.457e-01 2.719e-01 4.531e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATA 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATAT 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATA 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATAT 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATA 0.125 9.144e-01 9.144e-01 9.144e-01 4.626e-02 4.306e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTA 0.125 9.144e-01 9.144e-01 9.144e-01 4.626e-02 4.306e-01 NA
+AAAAAAAAAAAGCATTTTACTATTTTGTATATATATATATATAT 0.055 6.589e-02 8.577e-02 5.410e-02 1.366e+00 7.952e-01 NA
diff --git a/test/test3.e.txt b/test/test3.e.txt
index d867800..0fa77cb 100644
--- a/test/test3.e.txt
+++ b/test/test3.e.txt
@@ -1,6 +1,7 @@
seer: sequence element enrichment analysis
Detected binary phenotype
-Read 201 total k-mers. Of these:
- Filtered 106 k-mers
+Read 200 total k-mers. Of these:
+ Pre-filtered 105 k-mers
Tested 95 k-mers
+ Printed 95 k-mers
Done.
diff --git a/test/test3.o.txt b/test/test3.o.txt
index 4bb0317..1d731ed 100644
--- a/test/test3.o.txt
+++ b/test/test3.o.txt
@@ -1,96 +1,96 @@
-sequence maf unadj_p_val p_val beta se comments samples_present
-AAAAAAAAAAAAAAAAAAT 0.100 1.784e-02 2.494e-02 1.297e+00 5.786e-01 NA 7004_5#20 6805_2#22 6680_8#12 6983_3#64 6805_3#4 6830_3#21 6983_3#71 6259_5#16 7004_7#59 6983_4#74 6631_3#11 6731_3#13 7092_6#3 7092_6#4 6823_2#13 6631_3#20 6938_7#16 6731_3#23 6664_1#16 7004_8#75 6731_4#7 6938_7#24 6899_7#11 6259_6#16 6631_4#9 6775_2#22 6938_8#8 6736_7#7 6631_4#16 6938_8#10 6631_4#19 6259_7#4 7004_8#95 6736_7#15 6938_8#17 6631_5#2 6925_3#7 6983_5#20 7038_4#11 6673_8#24 7038_4#13 6925_8#11 6753_2#13 663 [...]
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAG 0.100 1.784e-02 2.494e-02 1.297e+00 5.786e-01 NA 6736_5#8 6775_1#5 6680_8#12 6899_6#2 6983_3#64 6805_3#4 6823_1#23 6830_3#21 6680_8#21 6983_3#71 6259_5#16 7004_7#59 6631_3#11 6664_1#2 7054_6#23 6664_1#3 7092_6#3 6631_3#16 7092_6#4 6823_2#13 6259_6#1 6899_6#21 6631_3#20 6938_7#16 6805_4#20 6664_1#16 6753_1#8 6259_6#14 6731_4#7 6259_6#16 6631_4#9 6753_1#12 6775_2#22 6736_7#7 6631_4#16 6673_ [...]
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.100 1.784e-02 2.494e-02 1.297e+00 5.786e-01 NA 6736_5#8 6775_1#5 6680_8#12 6899_6#2 6983_3#64 6805_3#4 6823_1#23 6830_3#21 6680_8#21 6983_3#71 6259_5#16 7004_7#59 6631_3#11 6664_1#2 7054_6#23 6664_1#3 7092_6#3 6631_3#16 7092_6#4 6823_2#13 6259_6#1 6899_6#21 6631_3#20 6938_7#16 6805_4#20 6664_1#16 6753_1#8 6259_6#14 6731_4#7 6259_6#16 6631_4#9 6753_1#12 6775_2#22 6736_7#7 6631_4#16 6673_8#10 6259_7#4 7004_8#95 6731_4#21 6938_8#16 6736_7#15 6631 [...]
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.100 1.784e-02 2.494e-02 1.297e+00 5.786e-01 NA 6736_5#8 6775_1#5 6680_8#12 6899_6#2 6983_3#64 6805_3#4 6823_1#23 6830_3#21 6680_8#21 6983_3#71 6259_5#16 7004_7#59 6631_3#11 6664_1#2 7054_6#23 6664_1#3 7092_6#3 6631_3#16 7092_6#4 6823_2#13 6259_6#1 6899_6#21 6631_3#20 6938_7#16 6805_4#20 6664_1#16 6753_1#8 6259_6#14 6731_4#7 6259_6#16 6631_4#9 6753_1#12 6775_2#22 6736_7#7 6631_4#16 6673_8#10 6259_7#4 7004_8#95 6731_4#21 6938_8#16 6736_7#15 6631_5# [...]
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.115 4.668e-03 8.463e-03 1.502e+00 5.703e-01 NA 6736_5#8 6775_1#5 6680_8#12 6899_6#2 6983_3#64 6805_3#4 6823_1#23 6830_3#21 6680_8#21 6983_3#71 6259_5#16 7004_7#59 6631_3#11 6664_1#2 7054_6#23 6664_1#3 7092_6#3 6631_3#16 7092_6#4 6823_2#13 6259_6#1 6899_6#21 6631_3#20 6938_7#16 6731_3#23 6805_4#20 6664_1#16 6753_1#8 6259_6#14 6731_4#7 6259_6#16 6631_4#9 6259_6#17 6753_1#12 6775_2#22 6736_7#7 6631_4#16 6673_8#10 6259_7#4 7004_8#95 6938_8#13 6731_4#2 [...]
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.115 4.668e-03 8.463e-03 1.502e+00 5.703e-01 NA 6736_5#8 6775_1#5 6680_8#12 6899_6#2 6983_3#64 6805_3#4 6823_1#23 6830_3#21 6680_8#21 6983_3#71 6259_5#16 7004_7#59 6631_3#11 6664_1#2 7054_6#23 6664_1#3 7092_6#3 6631_3#16 7092_6#4 6823_2#13 6259_6#1 6899_6#21 6631_3#20 6938_7#16 6731_3#23 6805_4#20 6664_1#16 7004_8#75 6753_1#8 6259_6#14 6731_4#7 6259_6#16 6631_4#9 6259_6#17 6753_1#12 6775_2#22 6736_7#7 6631_4#16 6673_8#10 6259_7#4 7004_8#95 6938_8#13 673 [...]
-AAAAAAAAAAAAAAAAATGCATATTTATCTT 0.120 2.937e-03 5.905e-03 1.564e+00 5.681e-01 NA 6736_5#8 6775_1#5 6680_8#12 6899_6#2 6983_3#64 6805_3#4 6823_1#23 6830_3#21 6680_8#21 6983_3#71 6259_5#16 7004_7#59 6631_3#11 6664_1#2 7054_6#23 6664_1#3 7092_6#3 6631_3#16 7092_6#4 6823_2#13 6259_6#1 6899_6#21 6631_3#20 6938_7#16 6731_3#23 6805_4#20 6664_1#16 7004_8#75 6753_1#8 6259_6#14 6731_4#7 6259_6#16 6631_4#9 6259_6#17 6753_1#12 6775_2#22 6736_7#7 6631_4#16 6673_8#10 6259_7#4 7004_8#95 6938_8#13 6731_ [...]
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-AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCT 0.105 2.560e-01 2.604e-01 5.476e-01 4.866e-01 NA 6259_5#2 6972_2#6 6775_2#9 6972_2#8 6972_2#9 6972_2#10 6972_2#11 6972_2#13 6259_5#13 6972_2#17 6805_6#11 6259_5#16 6805_6#14 6972_2#23 6755_3#2 6259_5#24 6755_3#11 6259_6#6 6805_7#3 6755_3#16 6972_3#14 6755_3#17 6972_3#15 6259_6#16 6805_7#14 6972_3#20 6840_1#1 6259_7#6 6972_4#13 6680_4#14 6972_4#14 6840_1#8 6259_7#11 6840_1#10 6680_4#18 684 [...]
-AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.105 2.560e-01 2.604e-01 5.476e-01 4.866e-01 NA 6259_5#2 6972_2#6 6775_2#9 6972_2#8 6972_2#9 6972_2#10 6972_2#11 6972_2#13 6259_5#13 6972_2#17 6805_6#11 6259_5#16 6805_6#14 6972_2#23 6755_3#2 6259_5#24 6755_3#11 6259_6#6 6805_7#3 6755_3#16 6972_3#14 6755_3#17 6972_3#15 6259_6#16 6805_7#14 6972_3#20 6840_1#1 6259_7#6 6972_4#13 6680_4#14 6972_4#14 6840_1#8 6259_7#11 6840_1#10 6680_4#18 6840_1#12 6680_4#20 6972_4#22 6972_4#24 6840_1#18 6871_1#1 [...]
-AAAAAAAAAAAAAAGTGTTAAAATAAA 0.110 1.877e-01 1.930e-01 6.271e-01 4.818e-01 NA 6259_5#2 6972_2#6 6775_2#9 6972_2#8 6972_2#9 6972_2#10 6972_2#11 6972_2#13 6259_5#13 6972_2#17 6805_6#11 6259_5#16 6805_6#14 6972_2#23 6755_3#2 6259_5#24 6259_6#1 6755_3#11 6259_6#6 6805_7#3 6755_3#16 6972_3#14 6755_3#17 6972_3#15 6259_6#16 6805_7#14 6972_3#20 6840_1#1 6259_7#6 6972_4#13 6680_4#14 6972_4#14 6840_1#8 6259_7#11 6840_1#10 6680_4#18 6840_1#12 6680_4#20 6972_4#22 6972_4#24 6840_1#18 6871_1#10 6871_1# [...]
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-AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTA 0.115 2.951e-01 2.984e-01 4.815e-01 4.630e-01 NA 6259_5#2 6972_2#6 6775_2#9 6972_2#8 6972_2#9 6972_2#10 6972_2#11 6972_2#13 6805_6#6 6259_5#13 6972_2#17 6805_6#11 6259_5#16 6805_6#14 6972_2#23 6755_3#2 6259_5#24 6972_3#6 6755_3#11 6259_6#6 6805_7#3 6755_3#16 6972_3#14 6755_3#17 6972_3#15 6259_6#16 6805_7#14 6972_3#20 6972_3#21 6840_1#1 6259_7#6 6972_4#13 6680_4#14 6972_4#14 6840_1#8 6259_ [...]
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-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.245 9.868e-01 9.868e-01 5.461e-03 3.305e-01 NA 6972_2#10 6775_2#12 6775_2#13 6775_2#14 6259_5#12 6805_6#9 6775_2#17 6972_2#16 6259_5#14 6805_6#11 6775_2#19 6259_5#16 6972_2#20 6775_2#22 6775_2#23 6972_2#22 6805_6#16 6775_2#24 6259_5#20 6805_6#17 6259_5#21 6972_2#24 6972_3#1 6259_6#1 6805_6#22 6755_3#9 6805_7#1 6259_6#6 6755_3#12 6805_7#5 6972_3#13 6805_7#7 6805_7#10 6755_3#18 6972_3#16 [...]
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-AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTAA 0.115 2.951e-01 2.984e-01 4.815e-01 4.630e-01 NA 6259_5#2 6972_2#6 6775_2#9 6972_2#8 6972_2#9 6972_2#10 6972_2#11 6972_2#13 6805_6#6 6259_5#13 6972_2#17 6805_6#11 6972_2#18 6259_5#16 6805_6#14 6972_2#23 6755_3#2 6259_5#24 6972_3#6 6755_3#11 6259_6#6 6805_7#3 6755_3#16 6972_3#14 6755_3#17 6972_3#15 6259_6#16 6805_7#14 6972_3#20 6972_3#21 6840_1#1 6259_7#6 6972_4#13 6680_4#14 6972_4#14 6840 [...]
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-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.290 3.637e-01 3.643e-01 -2.836e-01 3.126e-01 NA 6840_3#1 6840_3#2 6840_3#5 6259_5#8 6259_5#12 6259_5#14 6840_3#13 6259_5#16 6840_3#16 6840_3#17 6259_5#20 6840_3#19 6259_5#21 6840_3#20 6259_6#1 6840_3#24 6871_2#2 6259_6#6 6871_2#13 6871_2#15 6259_6#14 6259_6#16 6823_1#5 6823_1#7 6259_6#21 6259_6#22 6823_1#9 6823_1#11 6823_1#13 6259_7#3 6259_7#4 6823_1#15 6823_1#17 6823_1#18 6823_1#23 682 [...]
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.295 4.451e-01 4.455e-01 -2.373e-01 3.110e-01 NA 6840_3#1 6840_3#2 6840_3#5 6259_5#8 6259_5#12 6259_5#14 6840_3#13 6259_5#16 6840_3#16 6840_3#17 6259_5#20 6840_3#19 6259_5#21 6840_3#20 6259_6#1 6840_3#24 6871_2#2 6259_6#6 6871_2#13 6871_2#15 6259_6#14 6259_6#16 6823_1#5 6823_1#7 6259_6#21 6259_6#22 6823_1#9 6823_1#11 6823_1#13 6259_7#3 6259_7#4 6823_1#15 6823_1#17 6823_1#18 6823_1#23 6823 [...]
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.295 4.451e-01 4.455e-01 -2.373e-01 3.110e-01 NA 6840_3#1 6840_3#2 6840_3#5 6259_5#8 6259_5#12 6259_5#14 6840_3#13 6259_5#16 6840_3#16 6840_3#17 6259_5#20 6840_3#19 6259_5#21 6840_3#20 6259_6#1 6840_3#24 6871_2#2 6259_6#6 6871_2#13 6871_2#15 6259_6#14 6259_6#16 6823_1#5 6823_1#7 6259_6#21 6259_6#22 6823_1#9 6823_1#11 6823_1#13 6259_7#3 6259_7#4 6823_1#15 6823_1#17 6823_1#18 6823_1#23 6823_2#1 6823_2#2 6 [...]
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-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.295 4.451e-01 4.455e-01 -2.373e-01 3.110e-01 NA 6840_3#1 6840_3#2 6840_3#5 6259_5#8 6259_5#12 6259_5#14 6840_3#13 6259_5#16 6840_3#16 6840_3#17 6259_5#20 6840_3#19 6259_5#21 6840_3#20 6259_6#1 6840_3#24 6871_2#2 6259_6#6 6871_2#13 6871_2#15 6259_6#14 6259_6#16 6823_1#5 6823_1#7 6259_6#21 6259_6#22 6823_1#9 6823_1#11 6823_1#13 6259_7#3 6259_7#4 6823_1#15 6823_1#17 6823_1#18 6823_1#23 6823_2#1 6823_2#2 6259_7#18 6823_2#8 6823_2#10 6 [...]
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-AAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.115 5.475e-01 5.484e-01 2.719e-01 4.531e-01 NA 6631_3#11 6925_3#15 6925_3#19 6631_3#23 6972_2#8 6925_4#1 6972_2#10 6736_7#15 6925_4#3 6925_4#4 6259_6#1 6805_6#13 6259_6#4 6631_4#9 6925_4#10 7038_6#11 6805_6#21 6736_8#4 7038_6#12 6805_6#22 6755_3#12 6972_2#24 6805_7#1 6259_6#15 6805_7#2 6805_7#5 6736_8#12 6631_4#22 6925_5#2 6631_5#1 6925_5#3 6972_3#11 6680_4#1 6972_3#12 6736_8#18 6631_5#4 6259_7#2 6972_3#17 6680_4#8 6805_7#20 6680_4#10 6972_3#22 6972_ [...]
-AAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.120 7.264e-01 7.266e-01 1.542e-01 4.408e-01 NA 6631_3#11 6925_3#15 6925_3#19 6631_3#23 6972_2#8 6925_4#1 6972_2#10 6736_7#15 6925_4#3 6925_4#4 6259_6#1 6805_6#13 6259_6#4 6631_4#9 6925_4#10 7038_6#11 6805_6#21 6736_8#4 7038_6#12 6805_6#22 6755_3#12 6972_2#24 6805_7#1 6259_6#15 6805_7#2 6805_7#5 6736_8#12 6631_4#22 6925_5#2 6631_5#1 6925_5#3 6972_3#11 6680_4#1 6972_3#12 6736_8#18 6631_5#4 6259_7#2 6972_3#17 6680_4#8 6805_7#20 6680_4#10 6972_3#22 6972_3 [...]
-AAAAAAAAAAAGCATTTTACTATTTTATATATA 0.120 7.264e-01 7.266e-01 1.542e-01 4.408e-01 NA 6631_3#11 6925_3#15 6925_3#19 6631_3#23 6972_2#8 6925_4#1 6972_2#10 6736_7#15 6925_4#3 6925_4#4 6259_6#1 6805_6#13 6259_6#4 6631_4#9 6925_4#10 7038_6#11 6805_6#21 6736_8#4 7038_6#12 6805_6#22 6755_3#12 6972_2#24 6805_7#1 6259_6#15 6805_7#2 6805_7#5 6736_8#12 6631_4#22 6925_5#2 6631_5#1 6925_5#3 6972_3#11 6680_4#1 6972_3#12 6736_8#18 6631_5#4 6259_7#2 6972_3#17 6680_4#8 6805_7#20 6680_4#10 6972_3#22 6972_3# [...]
-AAAAAAAAAAAGCATTTTACTATTTTATATAT 0.120 7.264e-01 7.266e-01 1.542e-01 4.408e-01 NA 6631_3#11 6925_3#15 6925_3#19 6631_3#23 6972_2#8 6925_4#1 6972_2#10 6736_7#15 6925_4#3 6805_6#10 6925_4#4 6259_6#1 6805_6#13 6259_6#4 6631_4#9 6925_4#10 7038_6#11 6805_6#21 6736_8#4 7038_6#12 6805_6#22 6755_3#12 6972_2#24 6805_7#1 6259_6#15 6805_7#2 6805_7#5 6736_8#12 6631_4#22 6925_5#2 6631_5#1 6925_5#3 6972_3#11 6680_4#1 6972_3#12 6736_8#18 6631_5#4 6259_7#2 6972_3#17 6680_4#8 6805_7#20 6680_4#10 6972_3#2 [...]
-AAAAAAAAAAAGCATTTTACTATTTTATATA 0.120 7.264e-01 7.266e-01 1.542e-01 4.408e-01 NA 6631_3#11 6925_3#15 6925_3#19 6631_3#23 6972_2#8 6925_4#1 6972_2#10 6736_7#15 6925_4#3 6805_6#10 6925_4#4 6259_6#1 6805_6#13 6259_6#4 6631_4#9 6925_4#10 7038_6#11 6805_6#21 6736_8#4 7038_6#12 6805_6#22 6755_3#12 6972_2#24 6805_7#1 6259_6#15 6805_7#2 6805_7#5 6736_8#12 6631_4#22 6925_5#2 6631_5#1 6925_5#3 6972_3#11 6680_4#1 6972_3#12 6736_8#18 6631_5#4 6259_7#2 6972_3#17 6680_4#8 6805_7#20 6680_4#10 6972_3#22 [...]
-AAAAAAAAAAAGCATTTTACTATTTTATAT 0.120 7.264e-01 7.266e-01 1.542e-01 4.408e-01 NA 6631_3#11 6925_3#15 6925_3#19 6631_3#23 6972_2#8 6925_4#1 6972_2#10 6736_7#15 6925_4#3 6805_6#10 6925_4#4 6259_6#1 6805_6#13 6259_6#4 6631_4#9 6925_4#10 6755_3#7 7038_6#11 6805_6#21 6736_8#4 7038_6#12 6805_6#22 6755_3#12 6972_2#24 6805_7#1 6259_6#15 6805_7#2 6805_7#5 6736_8#12 6631_4#22 6925_5#2 6631_5#1 6925_5#3 6972_3#11 6680_4#1 6972_3#12 6736_8#18 6631_5#4 6259_7#2 6972_3#17 6680_4#8 6805_7#20 6680_4#10 6 [...]
-AAAAAAAAAAAGCATTTTACTATTTTATA 0.125 9.144e-01 9.144e-01 4.626e-02 4.306e-01 NA 6631_3#11 6925_3#15 6736_7#4 6259_5#15 6925_3#19 6631_3#23 6972_2#8 6925_4#1 6972_2#10 6736_7#15 6925_4#3 6805_6#10 6925_4#4 6259_6#1 6805_6#13 6259_6#4 6631_4#9 6925_4#10 6755_3#7 7038_6#11 6805_6#21 6736_8#4 7038_6#12 6805_6#22 6755_3#12 6972_2#24 6805_7#1 6259_6#15 6805_7#2 6805_7#5 6736_8#12 6631_4#22 6925_5#2 6631_5#1 6925_5#3 6972_3#11 6680_4#1 6972_3#12 6736_8#18 6631_5#4 6259_7#2 6972_3#17 6680_4#8 680 [...]
-AAAAAAAAAAAGCATTTTACTATTTTA 0.125 9.144e-01 9.144e-01 4.626e-02 4.306e-01 NA 6631_3#11 6925_3#15 6736_7#4 6259_5#15 6925_3#19 6631_3#23 6972_2#8 6925_4#1 6972_2#10 6736_7#15 6925_4#3 6805_6#10 6925_4#4 6259_6#1 6805_6#13 6259_6#4 6631_4#9 6925_4#10 6755_3#7 6736_8#4 7038_6#11 6805_6#21 7038_6#12 6805_6#22 6755_3#12 6972_2#24 6805_7#1 6259_6#15 6805_7#2 6631_4#22 6736_8#12 6805_7#5 6631_5#1 6925_5#2 6925_5#3 6972_3#11 6680_4#1 6631_5#4 6736_8#18 6972_3#12 6259_7#2 6972_3#17 6680_4#8 6805_ [...]
+sequence maf chisq_p_val wald_p_val lrt_p_val beta se comments samples_present
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+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAG 0.100 1.784e-02 2.494e-02 1.381e-02 1.297e+00 5.786e-01 NA 6736_5#8 6775_1#5 6680_8#12 6899_6#2 6983_3#64 6805_3#4 6823_1#23 6830_3#21 6680_8#21 6983_3#71 6259_5#16 7004_7#59 6631_3#11 6664_1#2 7054_6#23 6664_1#3 7092_6#3 6631_3#16 7092_6#4 6823_2#13 6259_6#1 6899_6#21 6631_3#20 6938_7#16 6805_4#20 6664_1#16 6753_1#8 6259_6#14 6731_4#7 6259_6#16 6631_4#9 6753_1#12 6775_2#22 6736_7#7 6631_ [...]
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+AAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.115 4.668e-03 8.463e-03 3.064e-03 1.502e+00 5.703e-01 NA 6736_5#8 6775_1#5 6680_8#12 6899_6#2 6983_3#64 6805_3#4 6823_1#23 6830_3#21 6680_8#21 6983_3#71 6259_5#16 7004_7#59 6631_3#11 6664_1#2 7054_6#23 6664_1#3 7092_6#3 6631_3#16 7092_6#4 6823_2#13 6259_6#1 6899_6#21 6631_3#20 6938_7#16 6731_3#23 6805_4#20 6664_1#16 7004_8#75 6753_1#8 6259_6#14 6731_4#7 6259_6#16 6631_4#9 6259_6#17 6753_1#12 6775_2#22 6736_7#7 6631_4#16 6673_8#10 6259_7#4 7004_8#95 693 [...]
+AAAAAAAAAAAAAAAAATGCATATTTATCTT 0.120 2.937e-03 5.905e-03 1.811e-03 1.564e+00 5.681e-01 NA 6736_5#8 6775_1#5 6680_8#12 6899_6#2 6983_3#64 6805_3#4 6823_1#23 6830_3#21 6680_8#21 6983_3#71 6259_5#16 7004_7#59 6631_3#11 6664_1#2 7054_6#23 6664_1#3 7092_6#3 6631_3#16 7092_6#4 6823_2#13 6259_6#1 6899_6#21 6631_3#20 6938_7#16 6731_3#23 6805_4#20 6664_1#16 7004_8#75 6753_1#8 6259_6#14 6731_4#7 6259_6#16 6631_4#9 6259_6#17 6753_1#12 6775_2#22 6736_7#7 6631_4#16 6673_8#10 6259_7#4 7004_8#95 6938_ [...]
+AAAAAAAAAAAAAAAAATGCATATTTATCT 0.120 2.937e-03 5.905e-03 1.811e-03 1.564e+00 5.681e-01 NA 6736_5#8 6775_1#5 6680_8#12 6899_6#2 6983_3#64 6805_3#4 6823_1#23 6830_3#21 6680_8#21 6983_3#71 6259_5#16 7004_7#59 6631_3#11 6664_1#2 7054_6#23 6664_1#3 6731_3#13 7092_6#3 6631_3#16 7092_6#4 6823_2#13 6259_6#1 6899_6#21 6631_3#20 6938_7#16 6731_3#23 6805_4#20 6664_1#16 7004_8#75 6753_1#8 6259_6#14 6731_4#7 6259_6#16 6631_4#9 6259_6#17 6753_1#12 6775_2#22 6736_7#7 6631_4#16 6673_8#10 6259_7#4 7004_8 [...]
+AAAAAAAAAAAAAAAAATGCATATTTAT 0.130 4.631e-03 7.579e-03 3.225e-03 1.389e+00 5.202e-01 NA 6925_8#13 6631_3#11 7038_5#9 6925_8#20 6631_3#16 6805_5#23 6736_7#7 6259_5#16 6631_3#20 6631_3#23 6972_2#10 6736_7#15 6775_2#22 6259_6#1 6805_6#14 6631_4#9 7038_6#9 7038_6#12 6805_6#22 6736_8#5 6972_2#24 6631_4#16 6972_3#1 6259_6#14 7038_6#15 6259_6#15 7038_6#16 6259_6#16 6259_6#17 7038_6#19 6805_7#5 6972_3#9 6631_5#2 6631_5#4 7038_7#2 6925_5#6 6631_5#6 6631_5#7 6259_7#4 6805_7#16 6680_4#6 6972_3#17 6 [...]
+AAAAAAAAAAAAAAAAATGCATAT 0.130 4.631e-03 7.579e-03 3.225e-03 1.389e+00 5.202e-01 NA 6925_8#13 6631_3#11 7038_5#9 6925_8#20 6631_3#16 6805_5#23 6736_7#7 6259_5#16 6631_3#20 6631_3#23 6972_2#10 6736_7#15 6775_2#22 6259_6#1 6805_6#14 6631_4#9 7038_6#9 7038_6#12 6805_6#22 6736_8#5 6972_2#24 6631_4#16 6972_3#1 6259_6#14 7038_6#15 6259_6#15 7038_6#16 6259_6#16 6259_6#17 7038_6#19 6805_7#5 6972_3#9 6631_5#2 6631_5#4 7038_7#2 6925_5#6 6631_5#6 6631_5#7 6259_7#4 6805_7#16 6680_4#6 6972_3#17 6925_ [...]
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+AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTAA 0.115 2.951e-01 2.984e-01 2.906e-01 4.815e-01 4.630e-01 NA 6259_5#2 6972_2#6 6775_2#9 6972_2#8 6972_2#9 6972_2#10 6972_2#11 6972_2#13 6805_6#6 6259_5#13 6972_2#17 6805_6#11 6972_2#18 6259_5#16 6805_6#14 6972_2#23 6755_3#2 6259_5#24 6972_3#6 6755_3#11 6259_6#6 6805_7#3 6755_3#16 6972_3#14 6755_3#17 6972_3#15 6259_6#16 6805_7#14 6972_3#20 6972_3#21 6840_1#1 6259_7#6 6972_4#13 6680_4#14 6972 [...]
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+AAAAAAAAAAAGCATTTTACTATTTTATATATATATA 0.100 1.552e-01 1.619e-01 1.484e-01 7.138e-01 5.103e-01 NA 6631_3#11 6925_3#19 6631_3#23 6972_2#8 6925_4#1 6972_2#10 6736_7#15 6925_4#4 6259_6#1 6805_6#13 6259_6#4 6631_4#9 6925_4#10 7038_6#11 6805_6#21 6736_8#4 7038_6#12 6805_6#22 6755_3#12 6972_2#24 6805_7#1 6259_6#15 6805_7#2 6736_8#12 6631_4#22 6925_5#2 6631_5#1 6925_5#3 6972_3#11 6680_4#1 6972_3#12 6736_8#18 6631_5#4 6259_7#2 6972_3#17 6805_7#20 6972_3#24 7038_7#16 6841_7#10 6925_5#24 7038_7#20 [...]
+AAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.115 5.475e-01 5.484e-01 5.457e-01 2.719e-01 4.531e-01 NA 6631_3#11 6925_3#15 6925_3#19 6631_3#23 6972_2#8 6925_4#1 6972_2#10 6736_7#15 6925_4#3 6925_4#4 6259_6#1 6805_6#13 6259_6#4 6631_4#9 6925_4#10 7038_6#11 6805_6#21 6736_8#4 7038_6#12 6805_6#22 6755_3#12 6972_2#24 6805_7#1 6259_6#15 6805_7#2 6736_8#12 6631_4#22 6925_5#2 6631_5#1 6925_5#3 6972_3#11 6680_4#1 6972_3#12 6736_8#18 6631_5#4 6259_7#2 6972_3#17 6680_4#8 6805_7#20 6972_3#24 6680_4#14 703 [...]
+AAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.115 5.475e-01 5.484e-01 5.457e-01 2.719e-01 4.531e-01 NA 6631_3#11 6925_3#15 6925_3#19 6631_3#23 6972_2#8 6925_4#1 6972_2#10 6736_7#15 6925_4#3 6925_4#4 6259_6#1 6805_6#13 6259_6#4 6631_4#9 6925_4#10 7038_6#11 6805_6#21 6736_8#4 7038_6#12 6805_6#22 6755_3#12 6972_2#24 6805_7#1 6259_6#15 6805_7#2 6805_7#5 6736_8#12 6631_4#22 6925_5#2 6631_5#1 6925_5#3 6972_3#11 6680_4#1 6972_3#12 6736_8#18 6631_5#4 6259_7#2 6972_3#17 6680_4#8 6805_7#20 6680_4#10 6972_ [...]
+AAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01 NA 6631_3#11 6925_3#15 6925_3#19 6631_3#23 6972_2#8 6925_4#1 6972_2#10 6736_7#15 6925_4#3 6925_4#4 6259_6#1 6805_6#13 6259_6#4 6631_4#9 6925_4#10 7038_6#11 6805_6#21 6736_8#4 7038_6#12 6805_6#22 6755_3#12 6972_2#24 6805_7#1 6259_6#15 6805_7#2 6805_7#5 6736_8#12 6631_4#22 6925_5#2 6631_5#1 6925_5#3 6972_3#11 6680_4#1 6972_3#12 6736_8#18 6631_5#4 6259_7#2 6972_3#17 6680_4#8 6805_7#20 6680_4#10 6972_3 [...]
+AAAAAAAAAAAGCATTTTACTATTTTATATATA 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01 NA 6631_3#11 6925_3#15 6925_3#19 6631_3#23 6972_2#8 6925_4#1 6972_2#10 6736_7#15 6925_4#3 6925_4#4 6259_6#1 6805_6#13 6259_6#4 6631_4#9 6925_4#10 7038_6#11 6805_6#21 6736_8#4 7038_6#12 6805_6#22 6755_3#12 6972_2#24 6805_7#1 6259_6#15 6805_7#2 6805_7#5 6736_8#12 6631_4#22 6925_5#2 6631_5#1 6925_5#3 6972_3#11 6680_4#1 6972_3#12 6736_8#18 6631_5#4 6259_7#2 6972_3#17 6680_4#8 6805_7#20 6680_4#10 6972_3# [...]
+AAAAAAAAAAAGCATTTTACTATTTTATATAT 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01 NA 6631_3#11 6925_3#15 6925_3#19 6631_3#23 6972_2#8 6925_4#1 6972_2#10 6736_7#15 6925_4#3 6805_6#10 6925_4#4 6259_6#1 6805_6#13 6259_6#4 6631_4#9 6925_4#10 7038_6#11 6805_6#21 6736_8#4 7038_6#12 6805_6#22 6755_3#12 6972_2#24 6805_7#1 6259_6#15 6805_7#2 6805_7#5 6736_8#12 6631_4#22 6925_5#2 6631_5#1 6925_5#3 6972_3#11 6680_4#1 6972_3#12 6736_8#18 6631_5#4 6259_7#2 6972_3#17 6680_4#8 6805_7#20 6680_4#1 [...]
+AAAAAAAAAAAGCATTTTACTATTTTATATA 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01 NA 6631_3#11 6925_3#15 6925_3#19 6631_3#23 6972_2#8 6925_4#1 6972_2#10 6736_7#15 6925_4#3 6805_6#10 6925_4#4 6259_6#1 6805_6#13 6259_6#4 6631_4#9 6925_4#10 7038_6#11 6805_6#21 6736_8#4 7038_6#12 6805_6#22 6755_3#12 6972_2#24 6805_7#1 6259_6#15 6805_7#2 6805_7#5 6736_8#12 6631_4#22 6925_5#2 6631_5#1 6925_5#3 6972_3#11 6680_4#1 6972_3#12 6736_8#18 6631_5#4 6259_7#2 6972_3#17 6680_4#8 6805_7#20 6680_4#10 [...]
+AAAAAAAAAAAGCATTTTACTATTTTATAT 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01 NA 6631_3#11 6925_3#15 6925_3#19 6631_3#23 6972_2#8 6925_4#1 6972_2#10 6736_7#15 6925_4#3 6805_6#10 6925_4#4 6259_6#1 6805_6#13 6259_6#4 6631_4#9 6925_4#10 6755_3#7 7038_6#11 6805_6#21 6736_8#4 7038_6#12 6805_6#22 6755_3#12 6972_2#24 6805_7#1 6259_6#15 6805_7#2 6805_7#5 6736_8#12 6631_4#22 6925_5#2 6631_5#1 6925_5#3 6972_3#11 6680_4#1 6972_3#12 6736_8#18 6631_5#4 6259_7#2 6972_3#17 6680_4#8 6805_7#20 6 [...]
+AAAAAAAAAAAGCATTTTACTATTTTATA 0.125 9.144e-01 9.144e-01 9.144e-01 4.626e-02 4.306e-01 NA 6631_3#11 6925_3#15 6736_7#4 6259_5#15 6925_3#19 6631_3#23 6972_2#8 6925_4#1 6972_2#10 6736_7#15 6925_4#3 6805_6#10 6925_4#4 6259_6#1 6805_6#13 6259_6#4 6631_4#9 6925_4#10 6755_3#7 7038_6#11 6805_6#21 6736_8#4 7038_6#12 6805_6#22 6755_3#12 6972_2#24 6805_7#1 6259_6#15 6805_7#2 6805_7#5 6736_8#12 6631_4#22 6925_5#2 6631_5#1 6925_5#3 6972_3#11 6680_4#1 6972_3#12 6736_8#18 6631_5#4 6259_7#2 6972_3#17 66 [...]
+AAAAAAAAAAAGCATTTTACTATTTTA 0.125 9.144e-01 9.144e-01 9.144e-01 4.626e-02 4.306e-01 NA 6631_3#11 6925_3#15 6736_7#4 6259_5#15 6925_3#19 6631_3#23 6972_2#8 6925_4#1 6972_2#10 6736_7#15 6925_4#3 6805_6#10 6925_4#4 6259_6#1 6805_6#13 6259_6#4 6631_4#9 6925_4#10 6755_3#7 6736_8#4 7038_6#11 6805_6#21 7038_6#12 6805_6#22 6755_3#12 6972_2#24 6805_7#1 6259_6#15 6805_7#2 6631_4#22 6736_8#12 6805_7#5 6631_5#1 6925_5#2 6925_5#3 6972_3#11 6680_4#1 6631_5#4 6736_8#18 6972_3#12 6259_7#2 6972_3#17 6680 [...]
diff --git a/test/test4.e.txt b/test/test4.e.txt
index 1eb4d12..c7d92fd 100644
--- a/test/test4.e.txt
+++ b/test/test4.e.txt
@@ -1,6 +1,7 @@
seer: sequence element enrichment analysis
Detected continuous phenotype
-Read 201 total k-mers. Of these:
- Filtered 185 k-mers
- Tested 16 k-mers
+Read 200 total k-mers. Of these:
+ Pre-filtered 105 k-mers
+ Tested 95 k-mers
+ Printed 95 k-mers
Done.
diff --git a/test/test4.o.txt b/test/test4.o.txt
index d55daea..157500c 100644
--- a/test/test4.o.txt
+++ b/test/test4.o.txt
@@ -1,17 +1,96 @@
-sequence maf unadj_p_val p_val beta se comments
-AAAAAAAAAAAAAAA 0.385 4.256e-01 4.331e-01 -6.599e+00 8.419e+00 NA
-AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCT 0.105 6.903e-01 6.719e-01 -5.666e+00 1.338e+01 NA
-AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.105 6.903e-01 6.719e-01 -5.666e+00 1.338e+01 NA
-AAAAAAAAAAAAAAGTGTTAAAATAAA 0.110 5.057e-01 4.754e-01 -9.346e+00 1.310e+01 NA
-AAAAAAAAAAAAAAGTGTTAAAA 0.110 5.057e-01 4.754e-01 -9.346e+00 1.310e+01 NA
-AAAAAAAAAAAAAAGT 0.165 7.270e-01 7.339e-01 -3.756e+00 1.105e+01 NA
-AAAAAAAAAAAAAAG 0.185 6.023e-01 6.142e-01 -5.323e+00 1.056e+01 NA
-AAAAAAAAAAAAAATGCATATTTATATTAGCAAAA 0.125 7.467e-01 7.248e-01 -4.366e+00 1.240e+01 NA
-AAAAAAAAAAAAAATGCATATTTATATTAG 0.125 7.467e-01 7.248e-01 -4.366e+00 1.240e+01 NA
-AAAAAAAAAAAAAATGCATATTTATATTA 0.130 9.712e-01 9.682e-01 -4.863e-01 1.220e+01 NA
-AAAAAAAAAAAAAAT 0.450 1.000e+00 1.000e+00 -4.716e-07 8.247e+00 NA
-AAAAAAAAAAAAAGTGTTAAAATAAA 0.120 8.310e-01 8.190e-01 -2.888e+00 1.262e+01 NA
-AAAAAAAAAAAAAGTGTTAAAA 0.120 8.310e-01 8.190e-01 -2.888e+00 1.262e+01 NA
-AAAAAAAAAAAAGTGTTAAAATAAA 0.120 8.310e-01 8.190e-01 -2.888e+00 1.262e+01 NA
-AAAAAAAAAAAAGTGTTAAAA 0.120 8.310e-01 8.190e-01 -2.888e+00 1.262e+01 NA
-AAAAAAAAAAAAGTG 0.120 8.310e-01 8.190e-01 -2.888e+00 1.262e+01 NA
+sequence maf chisq_p_val wald_p_val lrt_p_val beta se comments
+AAAAAAAAAAAAAAAAAAT 0.100 1.717e-01 2.076e-01 2.076e-01 1.717e+01 1.362e+01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAG 0.100 5.871e-01 5.859e-01 5.859e-01 7.444e+00 1.367e+01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.100 5.871e-01 5.859e-01 5.859e-01 7.444e+00 1.367e+01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.100 5.871e-01 5.859e-01 5.859e-01 7.444e+00 1.367e+01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.115 6.999e-01 7.095e-01 7.095e-01 4.790e+00 1.286e+01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.115 6.999e-01 7.095e-01 7.095e-01 4.790e+00 1.286e+01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCTT 0.120 7.071e-01 7.216e-01 7.216e-01 4.498e+00 1.262e+01 NA
+AAAAAAAAAAAAAAAAATGCATATTTATCT 0.120 7.071e-01 7.216e-01 7.216e-01 4.498e+00 1.262e+01 NA
+AAAAAAAAAAAAAAAAATGCATATTTAT 0.130 6.639e-01 6.715e-01 6.715e-01 5.172e+00 1.219e+01 NA
+AAAAAAAAAAAAAAAAATGCATAT 0.130 6.639e-01 6.715e-01 6.715e-01 5.172e+00 1.219e+01 NA
+AAAAAAAAAAAAAAAAATGCAT 0.130 6.639e-01 6.715e-01 6.715e-01 5.172e+00 1.219e+01 NA
+AAAAAAAAAAAAAAAAATGCA 0.130 6.639e-01 6.715e-01 6.715e-01 5.172e+00 1.219e+01 NA
+AAAAAAAAAAAAAAAAATG 0.130 6.639e-01 6.715e-01 6.715e-01 5.172e+00 1.219e+01 NA
+AAAAAAAAAAAAAAAAAT 0.145 5.057e-01 5.227e-01 5.227e-01 7.441e+00 1.164e+01 NA
+AAAAAAAAAAAAAAAAA 0.175 6.988e-01 7.038e-01 7.038e-01 4.104e+00 1.079e+01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGT 0.140 7.733e-01 7.653e-01 7.653e-01 3.530e+00 1.182e+01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.140 7.733e-01 7.653e-01 7.653e-01 3.530e+00 1.182e+01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.140 7.733e-01 7.653e-01 7.653e-01 3.530e+00 1.182e+01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.140 7.733e-01 7.653e-01 7.653e-01 3.530e+00 1.182e+01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.155 8.713e-01 8.703e-01 8.703e-01 1.851e+00 1.134e+01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.185 9.218e-01 9.237e-01 9.237e-01 1.011e+00 1.057e+01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTT 0.190 9.282e-01 9.307e-01 9.307e-01 9.097e-01 1.046e+01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCT 0.190 9.282e-01 9.307e-01 9.307e-01 9.097e-01 1.046e+01 NA
+AAAAAAAAAAAAAAAATGCATATTTAT 0.200 8.765e-01 8.789e-01 8.789e-01 1.563e+00 1.026e+01 NA
+AAAAAAAAAAAAAAAATGCATAT 0.200 8.765e-01 8.789e-01 8.789e-01 1.563e+00 1.026e+01 NA
+AAAAAAAAAAAAAAAATGCAT 0.200 8.765e-01 8.789e-01 8.789e-01 1.563e+00 1.026e+01 NA
+AAAAAAAAAAAAAAAATGCA 0.200 8.765e-01 8.789e-01 8.789e-01 1.563e+00 1.026e+01 NA
+AAAAAAAAAAAAAAAATG 0.200 8.765e-01 8.789e-01 8.789e-01 1.563e+00 1.026e+01 NA
+AAAAAAAAAAAAAAAAT 0.215 7.199e-01 7.274e-01 7.274e-01 3.481e+00 9.984e+00 NA
+AAAAAAAAAAAAAAAA 0.250 7.201e-01 7.228e-01 7.228e-01 3.360e+00 9.472e+00 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.185 4.606e-01 4.825e-01 4.825e-01 7.412e+00 1.055e+01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.185 4.606e-01 4.825e-01 4.825e-01 7.412e+00 1.055e+01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.185 4.606e-01 4.825e-01 4.825e-01 7.412e+00 1.055e+01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.185 4.606e-01 4.825e-01 4.825e-01 7.412e+00 1.055e+01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.190 6.301e-01 6.433e-01 6.433e-01 4.841e+00 1.045e+01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.190 6.301e-01 6.433e-01 6.433e-01 4.841e+00 1.045e+01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.190 6.301e-01 6.433e-01 6.433e-01 4.841e+00 1.045e+01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.190 6.301e-01 6.433e-01 6.433e-01 4.841e+00 1.045e+01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.210 8.499e-01 8.575e-01 8.575e-01 1.808e+00 1.007e+01 NA
+AAAAAAAAAAAAAAA 0.385 4.256e-01 4.331e-01 4.331e-01 -6.599e+00 8.419e+00 NA
+AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCT 0.105 6.903e-01 6.719e-01 6.719e-01 -5.666e+00 1.338e+01 NA
+AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.105 6.903e-01 6.719e-01 6.719e-01 -5.666e+00 1.338e+01 NA
+AAAAAAAAAAAAAAGTGTTAAAATAAA 0.110 5.057e-01 4.754e-01 4.754e-01 -9.346e+00 1.310e+01 NA
+AAAAAAAAAAAAAAGTGTTAAAA 0.110 5.057e-01 4.754e-01 4.754e-01 -9.346e+00 1.310e+01 NA
+AAAAAAAAAAAAAAGT 0.165 7.270e-01 7.339e-01 7.339e-01 -3.756e+00 1.105e+01 NA
+AAAAAAAAAAAAAAG 0.185 6.023e-01 6.142e-01 6.142e-01 -5.323e+00 1.056e+01 NA
+AAAAAAAAAAAAAATGCATATTTATATTAGCAAAA 0.125 7.467e-01 7.248e-01 7.248e-01 -4.366e+00 1.240e+01 NA
+AAAAAAAAAAAAAATGCATATTTATATTAG 0.125 7.467e-01 7.248e-01 7.248e-01 -4.366e+00 1.240e+01 NA
+AAAAAAAAAAAAAATGCATATTTATATTA 0.130 9.712e-01 9.682e-01 9.682e-01 -4.863e-01 1.220e+01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.205 2.015e-01 2.180e-01 2.180e-01 1.247e+01 1.012e+01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.205 2.015e-01 2.180e-01 2.180e-01 1.247e+01 1.012e+01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.205 2.015e-01 2.180e-01 2.180e-01 1.247e+01 1.012e+01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.205 2.015e-01 2.180e-01 2.180e-01 1.247e+01 1.012e+01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.210 3.061e-01 3.194e-01 3.194e-01 1.001e+01 1.005e+01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.210 3.061e-01 3.194e-01 3.194e-01 1.001e+01 1.005e+01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.210 3.061e-01 3.194e-01 3.194e-01 1.001e+01 1.005e+01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.210 3.061e-01 3.194e-01 3.194e-01 1.001e+01 1.005e+01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.230 4.635e-01 4.811e-01 4.811e-01 6.861e+00 9.738e+00 NA
+AAAAAAAAAAAAAATGCA 0.410 9.543e-01 9.546e-01 9.546e-01 4.754e-01 8.342e+00 NA
+AAAAAAAAAAAAAAT 0.450 1.000e+00 1.000e+00 1.000e+00 -4.716e-07 8.247e+00 NA
+AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTA 0.115 9.555e-01 9.528e-01 9.528e-01 7.615e-01 1.286e+01 NA
+AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.115 9.555e-01 9.528e-01 9.528e-01 7.615e-01 1.286e+01 NA
+AAAAAAAAAAAAAGTGTTAAAATAAA 0.120 8.310e-01 8.190e-01 8.190e-01 -2.888e+00 1.262e+01 NA
+AAAAAAAAAAAAAGTGTTAAAA 0.120 8.310e-01 8.190e-01 8.190e-01 -2.888e+00 1.262e+01 NA
+AAAAAAAAAAAAAGT 0.195 7.193e-01 7.154e-01 7.154e-01 3.774e+00 1.035e+01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.245 2.129e-01 2.197e-01 2.197e-01 1.166e+01 9.504e+00 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.245 2.129e-01 2.197e-01 2.197e-01 1.166e+01 9.504e+00 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.245 2.129e-01 2.197e-01 2.197e-01 1.166e+01 9.504e+00 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.245 2.129e-01 2.197e-01 2.197e-01 1.166e+01 9.504e+00 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.250 3.093e-01 3.138e-01 3.138e-01 9.520e+00 9.451e+00 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.250 3.093e-01 3.138e-01 3.138e-01 9.520e+00 9.451e+00 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.250 3.093e-01 3.138e-01 3.138e-01 9.520e+00 9.451e+00 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.250 3.093e-01 3.138e-01 3.138e-01 9.520e+00 9.451e+00 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.270 4.523e-01 4.613e-01 4.613e-01 6.799e+00 9.229e+00 NA
+AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTAA 0.115 9.555e-01 9.528e-01 9.528e-01 7.615e-01 1.286e+01 NA
+AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.115 9.555e-01 9.528e-01 9.528e-01 7.615e-01 1.286e+01 NA
+AAAAAAAAAAAAGTGTTAAAATAAA 0.120 8.310e-01 8.190e-01 8.190e-01 -2.888e+00 1.262e+01 NA
+AAAAAAAAAAAAGTGTTAAAA 0.120 8.310e-01 8.190e-01 8.190e-01 -2.888e+00 1.262e+01 NA
+AAAAAAAAAAAAGTG 0.120 8.310e-01 8.190e-01 8.190e-01 -2.888e+00 1.262e+01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.290 4.768e-01 4.895e-01 4.895e-01 6.241e+00 9.031e+00 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.295 4.025e-01 4.166e-01 4.166e-01 7.297e+00 8.982e+00 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.295 4.025e-01 4.166e-01 4.166e-01 7.297e+00 8.982e+00 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGT 0.295 4.025e-01 4.166e-01 4.166e-01 7.297e+00 8.982e+00 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.295 4.025e-01 4.166e-01 4.166e-01 7.297e+00 8.982e+00 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.295 4.025e-01 4.166e-01 4.166e-01 7.297e+00 8.982e+00 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATA 0.100 1.368e-01 1.382e-01 1.382e-01 2.017e+01 1.360e+01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.115 4.334e-02 4.377e-02 4.377e-02 2.567e+01 1.273e+01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.115 4.334e-02 4.377e-02 4.377e-02 2.567e+01 1.273e+01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.120 2.250e-02 2.064e-02 2.064e-02 2.884e+01 1.246e+01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATA 0.120 2.250e-02 2.064e-02 2.064e-02 2.884e+01 1.246e+01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATAT 0.120 2.250e-02 2.064e-02 2.064e-02 2.884e+01 1.246e+01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATA 0.120 2.250e-02 2.064e-02 2.064e-02 2.884e+01 1.246e+01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATAT 0.120 2.250e-02 2.064e-02 2.064e-02 2.884e+01 1.246e+01 NA
+AAAAAAAAAAAGCATTTTACTATTTTATA 0.125 6.333e-02 5.195e-02 5.195e-02 2.389e+01 1.229e+01 NA
+AAAAAAAAAAAGCATTTTACTATTTTA 0.125 6.333e-02 5.195e-02 5.195e-02 2.389e+01 1.229e+01 NA
diff --git a/test/test5.e.txt b/test/test5.e.txt
index 5092152..75d66e4 100644
--- a/test/test5.e.txt
+++ b/test/test5.e.txt
@@ -1,6 +1,7 @@
seer: sequence element enrichment analysis
Detected binary phenotype
-Read 201 total k-mers. Of these:
- Filtered 23 k-mers
+Read 200 total k-mers. Of these:
+ Pre-filtered 22 k-mers
Tested 178 k-mers
+ Printed 178 k-mers
Done.
diff --git a/test/test5.o.txt b/test/test5.o.txt
index 0066191..923540f 100644
--- a/test/test5.o.txt
+++ b/test/test5.o.txt
@@ -1,179 +1,179 @@
-sequence maf unadj_p_val p_val beta se covar1_p covar2_p covar3_p comments
-AAAAAAAAAAAAAAAAAAAT 0.034 2.162e-05 3.964e-11 1.862e+00 2.818e-01 4.097e-50 7.912e-27 6.002e-02 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAA 0.035 2.322e-07 6.657e-15 2.317e+00 2.974e-01 2.198e-50 3.034e-27 2.498e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.036 7.217e-08 2.851e-15 2.341e+00 2.964e-01 2.291e-50 3.967e-27 2.549e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.038 2.078e-05 3.556e-13 1.829e+00 2.514e-01 2.937e-50 7.387e-27 1.456e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTATCTT 0.039 1.614e-05 3.095e-13 1.832e+00 2.512e-01 2.678e-50 6.507e-27 1.461e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTATCT 0.039 1.251e-05 2.568e-13 1.837e+00 2.510e-01 2.571e-50 6.613e-27 1.475e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTAT 0.042 1.333e-05 1.849e-13 1.750e+00 2.377e-01 3.082e-50 1.040e-26 1.353e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATAT 0.043 2.389e-05 3.677e-13 1.704e+00 2.344e-01 3.182e-50 1.098e-26 1.267e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCAT 0.044 1.145e-05 1.874e-13 1.720e+00 2.337e-01 2.604e-50 9.679e-27 1.278e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCA 0.044 1.145e-05 1.874e-13 1.720e+00 2.337e-01 2.604e-50 9.679e-27 1.278e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATG 0.044 2.042e-05 3.723e-13 1.676e+00 2.305e-01 2.674e-50 1.017e-26 1.203e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAAT 0.055 1.166e-02 8.863e-09 1.094e+00 1.901e-01 2.087e-50 1.071e-26 4.141e-02 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAG 0.051 8.449e-07 1.059e-15 1.766e+00 2.202e-01 3.339e-51 8.333e-28 2.404e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.052 6.558e-07 8.409e-16 1.771e+00 2.200e-01 3.118e-51 8.176e-28 2.420e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.052 1.198e-06 1.358e-15 1.737e+00 2.174e-01 2.999e-51 7.973e-28 2.244e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.055 2.341e-07 2.230e-16 1.751e+00 2.133e-01 2.967e-51 1.221e-27 2.412e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.062 3.561e-05 4.309e-14 1.423e+00 1.884e-01 5.203e-51 2.832e-27 1.391e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTT 0.063 2.880e-05 3.678e-14 1.426e+00 1.882e-01 4.725e-51 2.530e-27 1.397e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCT 0.063 2.327e-05 2.992e-14 1.429e+00 1.881e-01 4.533e-51 2.557e-27 1.411e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTAT 0.085 8.350e-08 1.320e-19 1.494e+00 1.649e-01 2.244e-50 3.645e-26 1.661e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATAT 0.085 1.384e-07 2.532e-19 1.474e+00 1.640e-01 2.359e-50 3.791e-26 1.596e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCAT 0.086 5.523e-08 9.059e-20 1.488e+00 1.635e-01 1.812e-50 3.363e-26 1.609e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCA 0.086 5.523e-08 9.059e-20 1.488e+00 1.635e-01 1.812e-50 3.363e-26 1.609e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATG 0.087 9.174e-08 1.737e-19 1.468e+00 1.626e-01 1.895e-50 3.484e-26 1.552e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAT 0.099 8.217e-05 9.767e-15 1.132e+00 1.462e-01 1.565e-50 2.668e-26 7.195e-02 bfgs-fail
-AAAAAAAAAAAAAAAAA 0.110 3.317e-05 3.395e-16 1.143e+00 1.401e-01 7.458e-51 1.170e-26 8.631e-02 NA
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGT 0.080 2.772e-03 8.569e-06 7.271e-01 1.634e-01 4.683e-50 1.082e-27 4.461e-02 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.080 2.377e-03 8.394e-06 7.277e-01 1.633e-01 5.078e-50 1.059e-27 4.470e-02 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.081 1.741e-03 5.688e-06 7.393e-01 1.629e-01 4.781e-50 1.011e-27 4.603e-02 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.081 2.354e-03 7.513e-06 7.265e-01 1.622e-01 4.660e-50 1.024e-27 4.375e-02 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.087 2.560e-03 4.741e-06 7.171e-01 1.567e-01 4.154e-50 1.124e-27 5.327e-02 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.109 4.691e-01 8.132e-03 3.541e-01 1.338e-01 5.655e-50 4.996e-27 1.629e-02 NA
-AAAAAAAAAAAAAAAATGCATATTTATCTT 0.109 4.422e-01 7.458e-03 3.576e-01 1.337e-01 5.383e-50 4.809e-27 1.645e-02 NA
-AAAAAAAAAAAAAAAATGCATATTTATCT 0.109 4.163e-01 6.707e-03 3.620e-01 1.335e-01 5.319e-50 4.795e-27 1.668e-02 NA
-AAAAAAAAAAAAAAAATGCATATTTAT 0.137 3.737e-02 2.305e-06 5.745e-01 1.216e-01 1.363e-49 1.330e-26 3.116e-02 NA
-AAAAAAAAAAAAAAAATGCATAT 0.137 4.413e-02 3.140e-06 5.657e-01 1.213e-01 1.390e-49 1.349e-26 3.031e-02 NA
-AAAAAAAAAAAAAAAATGCAT 0.138 3.008e-02 1.569e-06 5.812e-01 1.210e-01 1.212e-49 1.290e-26 3.128e-02 NA
-AAAAAAAAAAAAAAAATGCA 0.138 3.008e-02 1.569e-06 5.812e-01 1.210e-01 1.212e-49 1.290e-26 3.128e-02 NA
-AAAAAAAAAAAAAAAATG 0.139 3.569e-02 2.147e-06 5.724e-01 1.208e-01 1.233e-49 1.306e-26 3.049e-02 NA
-AAAAAAAAAAAAAAAAT 0.156 1.786e-01 1.262e-04 4.374e-01 1.141e-01 7.998e-50 1.170e-26 1.948e-02 NA
-AAAAAAAAAAAAAAAA 0.175 4.098e-02 7.256e-07 5.496e-01 1.109e-01 7.486e-50 7.130e-27 3.180e-02 NA
-AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGC 0.096 2.357e-15 9.395e-16 1.349e+00 1.678e-01 7.253e-53 2.444e-25 3.551e-03 bfgs-fail
-AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.097 1.762e-15 5.864e-16 1.358e+00 1.678e-01 6.473e-53 2.302e-25 3.378e-03 bfgs-fail
-AAAAAAAAAAAAAAAGTGTTAAAATAAA 0.098 5.476e-16 7.031e-17 1.400e+00 1.677e-01 5.620e-53 2.215e-25 4.237e-03 bfgs-fail
-AAAAAAAAAAAAAAAGTGTTAAAA 0.098 4.082e-16 6.001e-17 1.403e+00 1.676e-01 5.585e-53 2.395e-25 4.105e-03 bfgs-fail
-AAAAAAAAAAAAAAAGT 0.111 1.425e-18 2.141e-16 1.318e+00 1.604e-01 2.899e-51 7.277e-26 4.401e-03 NA
-AAAAAAAAAAAAAAAG 0.120 1.616e-16 9.460e-16 1.204e+00 1.499e-01 2.453e-51 5.071e-26 4.659e-03 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.171 2.029e-21 2.728e-04 5.156e-01 1.417e-01 8.020e-41 1.054e-28 3.525e-02 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.171 3.896e-21 3.777e-04 5.022e-01 1.413e-01 5.660e-41 1.231e-28 3.388e-02 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.172 2.911e-21 3.699e-04 5.030e-01 1.413e-01 6.600e-41 1.213e-28 3.399e-02 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.172 2.174e-21 3.616e-04 5.039e-01 1.413e-01 7.719e-41 1.192e-28 3.412e-02 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.176 6.241e-23 4.859e-05 5.667e-01 1.395e-01 2.852e-40 4.823e-29 4.065e-02 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.177 2.370e-22 9.785e-05 5.404e-01 1.387e-01 1.459e-40 6.486e-29 3.711e-02 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.177 1.762e-22 9.560e-05 5.413e-01 1.387e-01 1.717e-40 6.377e-29 3.724e-02 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.177 3.411e-22 1.178e-04 5.328e-01 1.384e-01 1.306e-40 7.049e-29 3.578e-02 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.189 1.958e-18 1.159e-03 4.263e-01 1.312e-01 3.258e-42 1.960e-28 4.446e-02 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.018 3.068e-09 3.042e-03 4.265e+00 1.439e+00 1.720e-51 2.106e-26 1.717e-03 bad-chisq
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.019 2.207e-09 2.994e-03 4.272e+00 1.439e+00 1.768e-51 2.440e-26 1.699e-03 bad-chisq
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.019 1.588e-09 2.898e-03 4.285e+00 1.439e+00 1.728e-51 2.568e-26 1.684e-03 bad-chisq
-AAAAAAAAAAAAAAA 0.415 7.746e-25 1.283e-14 6.825e-01 8.853e-02 2.365e-43 4.518e-28 5.596e-02 NA
-AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCT 0.149 8.428e-24 6.366e-22 1.325e+00 1.376e-01 4.008e-54 4.526e-24 1.321e-03 NA
-AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.149 6.165e-24 3.870e-22 1.331e+00 1.376e-01 3.558e-54 4.274e-24 1.247e-03 NA
-AAAAAAAAAAAAAAGTGTTAAAATAAA 0.151 1.756e-24 4.382e-23 1.361e+00 1.376e-01 3.006e-54 4.170e-24 1.554e-03 NA
-AAAAAAAAAAAAAAGTGTTAAAA 0.151 1.281e-24 3.642e-23 1.363e+00 1.375e-01 2.972e-54 4.515e-24 1.496e-03 NA
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATG 0.109 1.943e-49 4.637e-09 3.205e+00 5.465e-01 2.801e-18 1.034e-35 4.308e-03 bfgs-fail
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.109 1.943e-49 4.637e-09 3.205e+00 5.465e-01 2.801e-18 1.034e-35 4.308e-03 bfgs-fail
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.110 8.940e-50 3.879e-09 3.222e+00 5.467e-01 8.326e-18 7.883e-36 4.428e-03 bfgs-fail
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.110 6.062e-50 3.308e-09 3.232e+00 5.460e-01 8.081e-18 7.666e-36 4.387e-03 bfgs-fail
-AAAAAAAAAAAAAAGTTCAAAATG 0.110 6.062e-50 3.308e-09 3.232e+00 5.460e-01 8.081e-18 7.666e-36 4.387e-03 bfgs-fail
-AAAAAAAAAAAAAAGTTCAAAAT 0.111 2.785e-50 1.911e-09 3.269e+00 5.439e-01 7.443e-18 5.283e-36 4.884e-03 bfgs-fail
-AAAAAAAAAAAAAAGT 0.255 3.647e-72 2.801e-29 1.476e+00 1.314e-01 1.487e-30 2.117e-30 2.707e-03 NA
-AAAAAAAAAAAAAAG 0.266 1.147e-67 5.016e-28 1.357e+00 1.236e-01 3.835e-32 3.870e-30 3.166e-03 NA
-AAAAAAAAAAAAAATGCATATTTATATTAGCAAAA 0.140 4.769e-32 2.327e-20 1.484e+00 1.605e-01 6.106e-50 4.846e-17 1.012e-02 NA
-AAAAAAAAAAAAAATGCATATTTATATTAG 0.141 7.311e-31 1.756e-19 1.421e+00 1.573e-01 5.068e-50 2.832e-17 9.950e-03 NA
-AAAAAAAAAAAAAATGCATATTTATATTA 0.141 5.180e-31 1.289e-19 1.425e+00 1.573e-01 4.790e-50 2.901e-17 9.971e-03 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.224 1.328e-27 1.974e-05 5.409e-01 1.268e-01 1.588e-37 1.313e-29 3.052e-02 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.224 2.583e-27 2.763e-05 5.302e-01 1.265e-01 1.104e-37 1.561e-29 2.970e-02 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.225 1.893e-27 2.698e-05 5.311e-01 1.265e-01 1.330e-37 1.536e-29 2.980e-02 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.225 1.387e-27 2.629e-05 5.320e-01 1.266e-01 1.608e-37 1.508e-29 2.990e-02 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.229 6.268e-29 4.380e-06 5.753e-01 1.253e-01 5.054e-37 5.966e-30 3.409e-02 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.230 4.700e-28 1.251e-05 5.440e-01 1.245e-01 1.774e-37 9.879e-30 3.072e-02 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.230 4.700e-28 1.251e-05 5.440e-01 1.245e-01 1.774e-37 9.879e-30 3.072e-02 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.230 9.119e-28 1.538e-05 5.373e-01 1.243e-01 1.335e-37 1.107e-29 2.973e-02 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.245 7.266e-24 9.860e-05 4.630e-01 1.189e-01 3.108e-39 2.629e-29 5.224e-02 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.024 3.069e-11 1.039e-05 3.688e+00 8.364e-01 1.902e-52 5.530e-27 4.574e-04 bad-chisq
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.025 2.205e-11 1.014e-05 3.692e+00 8.363e-01 1.955e-52 6.389e-27 4.524e-04 bad-chisq
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.025 1.584e-11 9.635e-06 3.700e+00 8.361e-01 1.909e-52 6.706e-27 4.473e-04 bad-chisq
-AAAAAAAAAAAAAATGCA 0.461 1.777e-48 5.752e-16 7.181e-01 8.869e-02 8.318e-40 3.903e-25 7.841e-02 NA
-AAAAAAAAAAAAAAT 0.489 2.057e-41 3.340e-13 6.338e-01 8.703e-02 2.427e-41 2.455e-25 5.026e-02 NA
-AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTA 0.164 2.985e-24 2.695e-22 1.258e+00 1.296e-01 3.321e-54 1.287e-23 6.145e-04 NA
-AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.165 2.190e-24 1.634e-22 1.265e+00 1.295e-01 2.954e-54 1.220e-23 5.775e-04 NA
-AAAAAAAAAAAAAGTGTTAAAATAAA 0.166 6.307e-25 1.865e-23 1.292e+00 1.295e-01 2.494e-54 1.212e-23 7.050e-04 NA
-AAAAAAAAAAAAAGTGTTAAAA 0.166 4.614e-25 1.538e-23 1.294e+00 1.294e-01 2.460e-54 1.310e-23 6.768e-04 NA
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGA 0.141 2.170e-65 8.899e-15 4.399e+00 5.671e-01 4.219e-02 4.912e-40 1.102e-02 bfgs-fail
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.141 2.170e-65 8.899e-15 4.399e+00 5.671e-01 4.219e-02 4.912e-40 1.102e-02 bfgs-fail
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.141 9.450e-66 7.955e-15 4.592e+00 5.909e-01 1.584e-01 1.595e-39 1.312e-02 bfgs-fail
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.142 6.232e-66 7.324e-15 4.592e+00 5.902e-01 1.564e-01 1.559e-39 1.301e-02 bfgs-fail
-AAAAAAAAAAAAAGTTCAAAATG 0.142 6.232e-66 7.324e-15 4.592e+00 5.902e-01 1.564e-01 1.559e-39 1.301e-02 bfgs-fail
-AAAAAAAAAAAAAGTTCAAAAT 0.142 2.709e-66 5.153e-15 4.604e+00 5.883e-01 1.562e-01 1.054e-39 1.454e-02 bfgs-fail
-AAAAAAAAAAAAAGTT 0.145 5.469e-64 1.173e-14 3.394e+00 4.395e-01 1.551e-03 1.632e-37 1.334e-02 bfgs-fail
-AAAAAAAAAAAAAGT 0.302 2.900e-82 9.505e-30 1.379e+00 1.218e-01 1.015e-23 9.352e-32 1.672e-03 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.253 2.742e-16 3.018e-02 2.513e-01 1.159e-01 2.259e-42 1.149e-27 1.025e-02 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.253 4.374e-16 3.578e-02 2.430e-01 1.158e-01 1.675e-42 1.323e-27 1.008e-02 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.253 3.437e-16 3.537e-02 2.436e-01 1.158e-01 1.892e-42 1.317e-27 1.010e-02 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.254 2.699e-16 3.493e-02 2.443e-01 1.158e-01 2.147e-42 1.309e-27 1.012e-02 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.262 8.528e-19 3.151e-04 4.118e-01 1.143e-01 1.598e-40 5.360e-29 1.636e-02 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.263 6.139e-18 8.619e-04 3.788e-01 1.137e-01 5.267e-41 9.762e-29 1.487e-02 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.263 6.139e-18 8.619e-04 3.788e-01 1.137e-01 5.267e-41 9.762e-29 1.487e-02 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.264 9.968e-18 9.958e-04 3.737e-01 1.135e-01 4.244e-41 1.081e-28 1.455e-02 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.279 3.649e-15 2.386e-03 3.328e-01 1.096e-01 3.490e-42 1.777e-28 2.473e-02 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.025 7.923e-11 2.424e-06 3.403e+00 7.218e-01 2.812e-52 6.422e-27 4.756e-04 bfgs-fail
-AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.025 5.698e-11 2.354e-06 3.407e+00 7.217e-01 2.887e-52 7.393e-27 4.703e-04 bfgs-fail
-AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.026 4.097e-11 2.214e-06 3.415e+00 7.215e-01 2.816e-52 7.744e-27 4.648e-04 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATAT 0.012 4.010e-01 6.728e-01 1.541e-01 3.648e-01 2.976e-50 8.783e-27 5.543e-03 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATA 0.013 4.586e-01 7.535e-01 1.107e-01 3.526e-01 3.023e-50 8.770e-27 5.561e-03 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATAT 0.017 1.949e-01 2.294e-01 3.884e-01 3.232e-01 2.423e-50 9.731e-27 5.736e-03 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTATATATATATATATAT 0.019 6.324e-02 5.179e-02 6.196e-01 3.186e-01 1.971e-50 1.037e-26 6.270e-03 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.036 2.765e-03 3.965e-08 1.337e+00 2.432e-01 6.933e-51 4.650e-27 2.304e-02 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.036 2.246e-03 3.176e-08 1.344e+00 2.428e-01 6.863e-51 4.858e-27 2.303e-02 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.038 1.689e-02 4.919e-07 1.151e+00 2.286e-01 6.291e-51 4.285e-27 1.725e-02 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTATATATA 0.038 1.416e-02 3.903e-07 1.159e+00 2.281e-01 5.935e-51 4.234e-27 1.742e-02 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTATATAT 0.038 1.184e-02 3.178e-07 1.166e+00 2.278e-01 5.846e-51 4.391e-27 1.748e-02 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTATATA 0.039 9.873e-03 2.164e-07 1.180e+00 2.273e-01 5.411e-51 4.213e-27 1.772e-02 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTATA 0.041 1.701e-02 6.065e-07 1.092e+00 2.190e-01 4.963e-51 4.374e-27 1.547e-02 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTGTATATATATAT 0.030 6.222e-05 3.693e-03 -6.454e-01 2.223e-01 1.371e-49 6.931e-27 6.964e-03 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTGTATATATATA 0.030 3.824e-05 2.612e-03 -6.665e-01 2.214e-01 1.458e-49 6.893e-27 6.984e-03 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTGTATATATAT 0.031 1.371e-05 1.231e-03 -7.022e-01 2.173e-01 1.646e-49 6.456e-27 7.006e-03 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTGTATATATA 0.032 2.179e-05 1.411e-03 -6.901e-01 2.162e-01 1.595e-49 6.202e-27 6.998e-03 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTGTATAT 0.032 5.266e-05 3.436e-03 -6.241e-01 2.133e-01 1.467e-49 6.614e-27 6.886e-03 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTG 0.033 3.276e-05 2.494e-03 -6.427e-01 2.125e-01 1.577e-49 6.709e-27 6.922e-03 bfgs-fail
-AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTAA 0.170 5.037e-25 1.247e-23 1.276e+00 1.273e-01 1.339e-54 9.944e-24 4.452e-04 NA
-AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.171 3.688e-25 7.491e-24 1.282e+00 1.273e-01 1.186e-54 9.410e-24 4.168e-04 NA
-AAAAAAAAAAAAGTGTTAAAATAAA 0.172 1.054e-25 8.294e-25 1.308e+00 1.272e-01 9.921e-55 9.270e-24 5.090e-04 NA
-AAAAAAAAAAAAGTGTTAAAA 0.172 7.697e-26 6.811e-25 1.311e+00 1.272e-01 9.776e-55 1.001e-23 4.878e-04 NA
-AAAAAAAAAAAAGTG 0.173 1.590e-25 1.175e-24 1.299e+00 1.267e-01 1.070e-54 1.009e-23 4.895e-04 NA
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGAG 0.147 7.347e-68 2.483e-15 4.502e+00 5.687e-01 2.213e-01 8.510e-39 1.398e-02 bfgs-fail
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.147 7.347e-68 2.483e-15 4.502e+00 5.687e-01 2.213e-01 8.510e-39 1.398e-02 bfgs-fail
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.147 3.168e-68 4.988e-15 4.795e+00 6.125e-01 6.360e-01 9.722e-38 1.768e-02 bfgs-fail
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.148 2.079e-68 4.608e-15 4.794e+00 6.116e-01 6.308e-01 9.357e-38 1.754e-02 bfgs-fail
-AAAAAAAAAAAAGTTCAAAATGCA 0.148 1.364e-68 4.306e-15 4.795e+00 6.111e-01 6.300e-01 9.094e-38 1.780e-02 bfgs-fail
-AAAAAAAAAAAAGTTCAAAATG 0.148 1.364e-68 4.306e-15 4.795e+00 6.111e-01 6.300e-01 9.094e-38 1.780e-02 bfgs-fail
-AAAAAAAAAAAAGTTCAAAAT 0.149 5.868e-69 3.098e-15 4.806e+00 6.092e-01 6.313e-01 6.053e-38 1.984e-02 bfgs-fail
-AAAAAAAAAAAAGTT 0.153 1.293e-66 3.709e-15 3.355e+00 4.266e-01 5.507e-03 6.288e-37 1.660e-02 bfgs-fail
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.307 4.737e-03 6.252e-01 5.208e-02 1.066e-01 8.874e-47 2.083e-25 5.179e-03 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.307 4.313e-03 5.843e-01 5.830e-02 1.066e-01 1.043e-46 1.799e-25 5.123e-03 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.308 4.604e-03 5.949e-01 5.657e-02 1.064e-01 9.467e-47 1.830e-25 5.138e-03 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGT 0.308 5.387e-03 6.423e-01 4.936e-02 1.063e-01 7.549e-47 2.151e-25 5.209e-03 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.308 4.911e-03 6.394e-01 4.979e-02 1.063e-01 8.087e-47 2.156e-25 5.205e-03 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.309 4.474e-03 6.363e-01 5.027e-02 1.063e-01 8.698e-47 2.159e-25 5.201e-03 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.026 7.983e-09 1.187e-07 2.292e+00 4.323e-01 3.714e-52 5.292e-27 7.219e-04 bfgs-fail
-AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.027 5.797e-09 1.115e-07 2.296e+00 4.321e-01 3.793e-52 6.006e-27 7.136e-04 bfgs-fail
-AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.027 4.208e-09 9.826e-08 2.304e+00 4.319e-01 3.687e-52 6.252e-27 7.043e-04 bfgs-fail
-AAAAAAAAAAAGAAAGATAGTTTAACCTATGAAAAAATCACTAAAAATTTTTGCTACATCTAAATAGTTTGACCTCTTCGGGGTTGCTTTGGTCGTTGGG 0.066 5.096e-27 1.832e-15 2.712e+00 3.409e-01 7.003e-59 9.408e-32 2.717e-13 bfgs-fail
-AAAAAAAAAAAGAAAG 0.068 1.613e-26 4.647e-15 2.582e+00 3.294e-01 2.754e-58 7.757e-32 7.206e-13 bfgs-fail
-AAAAAAAAAAAGAAA 0.096 8.007e-38 1.215e-01 3.025e-01 1.953e-01 1.438e-49 1.023e-24 1.430e-03 NA
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATAT 0.011 8.313e-01 7.011e-01 1.465e-01 3.817e-01 3.094e-50 8.227e-27 5.640e-03 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATCATAAGATAAGTTTTTTATAAAGACACGCAAATGAGTATAAATCAGCTAATTTT 0.010 1.105e-05 2.065e-02 3.354e+00 1.449e+00 1.058e-50 2.921e-26 4.735e-03 bad-chisq
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATAT 0.034 3.749e-01 3.366e-01 2.119e-01 2.205e-01 2.275e-50 1.134e-26 5.480e-03 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATA 0.035 2.936e-01 2.686e-01 2.392e-01 2.162e-01 2.215e-50 1.283e-26 5.432e-03 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATAT 0.051 8.637e-03 6.725e-04 6.505e-01 1.913e-01 7.329e-51 2.085e-26 7.732e-03 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATA 0.051 6.169e-03 4.778e-04 6.663e-01 1.908e-01 7.040e-51 2.243e-26 7.815e-03 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATAT 0.060 2.808e-04 1.911e-06 8.746e-01 1.836e-01 3.679e-51 2.966e-26 1.280e-02 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATA 0.060 2.307e-04 1.552e-06 8.813e-01 1.834e-01 3.605e-51 3.075e-26 1.297e-02 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATAT 0.069 1.145e-06 3.596e-12 1.268e+00 1.823e-01 1.418e-51 2.458e-26 3.940e-02 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATA 0.070 1.206e-06 2.683e-12 1.265e+00 1.808e-01 1.335e-51 2.371e-26 4.041e-02 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATAT 0.081 2.783e-09 1.022e-19 1.620e+00 1.783e-01 2.426e-51 2.347e-26 2.273e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATA 0.086 1.446e-07 1.433e-17 1.416e+00 1.660e-01 1.162e-51 1.707e-26 1.371e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATTATAAGATAAGTTTTTTATAAAGACACGCAAATGAGTATAAATCAGCTAATTTTTGGTTTA 0.011 2.449e-03 1.136e-01 -6.065e-01 3.833e-01 6.125e-50 8.889e-27 7.133e-03 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.098 3.388e-05 4.795e-15 1.161e+00 1.482e-01 6.949e-52 1.220e-26 5.911e-02 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.100 3.393e-05 4.451e-15 1.151e+00 1.467e-01 6.708e-52 1.345e-26 5.806e-02 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.103 3.513e-04 1.080e-13 1.062e+00 1.428e-01 5.697e-52 9.039e-27 4.292e-02 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATA 0.103 4.767e-04 1.821e-13 1.048e+00 1.423e-01 5.684e-52 8.794e-27 4.183e-02 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATAT 0.104 3.478e-04 1.332e-13 1.053e+00 1.421e-01 5.653e-52 9.937e-27 4.189e-02 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATA 0.104 2.965e-04 9.057e-14 1.059e+00 1.420e-01 5.229e-52 9.618e-27 4.239e-02 NA
-AAAAAAAAAAAGCATTTTACTATTTTATAT 0.104 2.525e-04 7.361e-14 1.062e+00 1.419e-01 5.037e-52 9.806e-27 4.250e-02 NA
-AAAAAAAAAAAGCATTTTACTATTTTATA 0.108 5.237e-04 2.913e-13 1.014e+00 1.389e-01 4.409e-52 9.751e-27 3.589e-02 NA
-AAAAAAAAAAAGCATTTTACTATTTTA 0.108 4.490e-04 1.752e-13 1.024e+00 1.389e-01 4.117e-52 9.286e-27 3.785e-02 NA
-AAAAAAAAAAAGCATTTTACTATTTTGTATATATATATATATAT 0.076 2.525e-06 1.508e-04 -5.398e-01 1.424e-01 8.933e-49 1.010e-26 6.291e-03 bfgs-fail
+sequence maf chisq_p_val wald_p_val lrt_p_val beta se covar1_p covar2_p covar3_p comments
+AAAAAAAAAAAAAAAAAAAT 0.034 2.162e-05 3.964e-11 9.383e-14 1.862e+00 2.818e-01 4.097e-50 7.912e-27 6.002e-02 bfgs-fail
+AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAA 0.035 2.322e-07 6.657e-15 1.787e-20 2.317e+00 2.974e-01 2.198e-50 3.034e-27 2.498e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.036 7.217e-08 2.851e-15 2.991e-21 2.341e+00 2.964e-01 2.291e-50 3.967e-27 2.549e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.038 2.078e-05 3.556e-13 4.244e-16 1.829e+00 2.514e-01 2.937e-50 7.387e-27 1.456e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAATGCATATTTATCTT 0.039 1.614e-05 3.095e-13 3.334e-16 1.832e+00 2.512e-01 2.678e-50 6.507e-27 1.461e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAATGCATATTTATCT 0.039 1.251e-05 2.568e-13 2.445e-16 1.837e+00 2.510e-01 2.571e-50 6.613e-27 1.475e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAATGCATATTTAT 0.042 1.333e-05 1.849e-13 2.739e-16 1.750e+00 2.377e-01 3.082e-50 1.040e-26 1.353e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAATGCATAT 0.043 2.389e-05 3.677e-13 9.019e-16 1.704e+00 2.344e-01 3.182e-50 1.098e-26 1.267e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAATGCAT 0.044 1.145e-05 1.874e-13 3.175e-16 1.720e+00 2.337e-01 2.604e-50 9.679e-27 1.278e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAATGCA 0.044 1.145e-05 1.874e-13 3.175e-16 1.720e+00 2.337e-01 2.604e-50 9.679e-27 1.278e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAATG 0.044 2.042e-05 3.723e-13 1.024e-15 1.676e+00 2.305e-01 2.674e-50 1.017e-26 1.203e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAAT 0.055 1.166e-02 8.863e-09 1.741e-09 1.094e+00 1.901e-01 2.087e-50 1.071e-26 4.141e-02 bfgs-fail
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAG 0.051 8.449e-07 1.059e-15 5.707e-19 1.766e+00 2.202e-01 3.339e-51 8.333e-28 2.404e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.052 6.558e-07 8.409e-16 3.980e-19 1.771e+00 2.200e-01 3.118e-51 8.176e-28 2.420e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.052 1.198e-06 1.358e-15 1.007e-18 1.737e+00 2.174e-01 2.999e-51 7.973e-28 2.244e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.055 2.341e-07 2.230e-16 7.605e-20 1.751e+00 2.133e-01 2.967e-51 1.221e-27 2.412e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.062 3.561e-05 4.309e-14 5.102e-16 1.423e+00 1.884e-01 5.203e-51 2.832e-27 1.391e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCATATTTATCTT 0.063 2.880e-05 3.678e-14 4.092e-16 1.426e+00 1.882e-01 4.725e-51 2.530e-27 1.397e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCATATTTATCT 0.063 2.327e-05 2.992e-14 3.090e-16 1.429e+00 1.881e-01 4.533e-51 2.557e-27 1.411e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCATATTTAT 0.085 8.350e-08 1.320e-19 9.868e-23 1.494e+00 1.649e-01 2.244e-50 3.645e-26 1.661e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCATAT 0.085 1.384e-07 2.532e-19 2.578e-22 1.474e+00 1.640e-01 2.359e-50 3.791e-26 1.596e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCAT 0.086 5.523e-08 9.059e-20 6.371e-23 1.488e+00 1.635e-01 1.812e-50 3.363e-26 1.609e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCA 0.086 5.523e-08 9.059e-20 6.371e-23 1.488e+00 1.635e-01 1.812e-50 3.363e-26 1.609e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATG 0.087 9.174e-08 1.737e-19 1.662e-22 1.468e+00 1.626e-01 1.895e-50 3.484e-26 1.552e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAT 0.099 8.217e-05 9.767e-15 4.373e-16 1.132e+00 1.462e-01 1.565e-50 2.668e-26 7.195e-02 bfgs-fail
+AAAAAAAAAAAAAAAAA 0.110 3.317e-05 3.395e-16 1.137e-17 1.143e+00 1.401e-01 7.458e-51 1.170e-26 8.631e-02 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGT 0.080 2.772e-03 8.569e-06 5.087e-06 7.271e-01 1.634e-01 4.683e-50 1.082e-27 4.461e-02 bfgs-fail
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.080 2.377e-03 8.394e-06 4.971e-06 7.277e-01 1.633e-01 5.078e-50 1.059e-27 4.470e-02 bfgs-fail
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.081 1.741e-03 5.688e-06 3.242e-06 7.393e-01 1.629e-01 4.781e-50 1.011e-27 4.603e-02 bfgs-fail
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.081 2.354e-03 7.513e-06 4.432e-06 7.265e-01 1.622e-01 4.660e-50 1.024e-27 4.375e-02 bfgs-fail
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.087 2.560e-03 4.741e-06 2.741e-06 7.171e-01 1.567e-01 4.154e-50 1.124e-27 5.327e-02 bfgs-fail
+AAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.109 4.691e-01 8.132e-03 7.627e-03 3.541e-01 1.338e-01 5.655e-50 4.996e-27 1.629e-02 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTT 0.109 4.422e-01 7.458e-03 6.977e-03 3.576e-01 1.337e-01 5.383e-50 4.809e-27 1.645e-02 NA
+AAAAAAAAAAAAAAAATGCATATTTATCT 0.109 4.163e-01 6.707e-03 6.255e-03 3.620e-01 1.335e-01 5.319e-50 4.795e-27 1.668e-02 NA
+AAAAAAAAAAAAAAAATGCATATTTAT 0.137 3.737e-02 2.305e-06 1.574e-06 5.745e-01 1.216e-01 1.363e-49 1.330e-26 3.116e-02 NA
+AAAAAAAAAAAAAAAATGCATAT 0.137 4.413e-02 3.140e-06 2.185e-06 5.657e-01 1.213e-01 1.390e-49 1.349e-26 3.031e-02 NA
+AAAAAAAAAAAAAAAATGCAT 0.138 3.008e-02 1.569e-06 1.049e-06 5.812e-01 1.210e-01 1.212e-49 1.290e-26 3.128e-02 NA
+AAAAAAAAAAAAAAAATGCA 0.138 3.008e-02 1.569e-06 1.049e-06 5.812e-01 1.210e-01 1.212e-49 1.290e-26 3.128e-02 NA
+AAAAAAAAAAAAAAAATG 0.139 3.569e-02 2.147e-06 1.464e-06 5.724e-01 1.208e-01 1.233e-49 1.306e-26 3.049e-02 NA
+AAAAAAAAAAAAAAAAT 0.156 1.786e-01 1.262e-04 1.066e-04 4.374e-01 1.141e-01 7.998e-50 1.170e-26 1.948e-02 NA
+AAAAAAAAAAAAAAAA 0.175 4.098e-02 7.256e-07 5.175e-07 5.496e-01 1.109e-01 7.486e-50 7.130e-27 3.180e-02 NA
+AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGC 0.096 2.357e-15 9.395e-16 8.905e-19 1.349e+00 1.678e-01 7.253e-53 2.444e-25 3.551e-03 bfgs-fail
+AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.097 1.762e-15 5.864e-16 4.742e-19 1.358e+00 1.678e-01 6.473e-53 2.302e-25 3.378e-03 bfgs-fail
+AAAAAAAAAAAAAAAGTGTTAAAATAAA 0.098 5.476e-16 7.031e-17 2.697e-20 1.400e+00 1.677e-01 5.620e-53 2.215e-25 4.237e-03 bfgs-fail
+AAAAAAAAAAAAAAAGTGTTAAAA 0.098 4.082e-16 6.001e-17 2.159e-20 1.403e+00 1.676e-01 5.585e-53 2.395e-25 4.105e-03 bfgs-fail
+AAAAAAAAAAAAAAAGT 0.111 1.425e-18 2.141e-16 2.426e-19 1.318e+00 1.604e-01 2.899e-51 7.277e-26 4.401e-03 NA
+AAAAAAAAAAAAAAAG 0.120 1.616e-16 9.460e-16 5.215e-18 1.204e+00 1.499e-01 2.453e-51 5.071e-26 4.659e-03 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.171 2.029e-21 2.728e-04 2.351e-04 5.156e-01 1.417e-01 8.020e-41 1.054e-28 3.525e-02 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.171 3.896e-21 3.777e-04 3.297e-04 5.022e-01 1.413e-01 5.660e-41 1.231e-28 3.388e-02 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.172 2.911e-21 3.699e-04 3.227e-04 5.030e-01 1.413e-01 6.600e-41 1.213e-28 3.399e-02 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.172 2.174e-21 3.616e-04 3.153e-04 5.039e-01 1.413e-01 7.719e-41 1.192e-28 3.412e-02 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.176 6.241e-23 4.859e-05 3.874e-05 5.667e-01 1.395e-01 2.852e-40 4.823e-29 4.065e-02 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.177 2.370e-22 9.785e-05 8.071e-05 5.404e-01 1.387e-01 1.459e-40 6.486e-29 3.711e-02 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.177 1.762e-22 9.560e-05 7.881e-05 5.413e-01 1.387e-01 1.717e-40 6.377e-29 3.724e-02 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.177 3.411e-22 1.178e-04 9.827e-05 5.328e-01 1.384e-01 1.306e-40 7.049e-29 3.578e-02 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.189 1.958e-18 1.159e-03 1.057e-03 4.263e-01 1.312e-01 3.258e-42 1.960e-28 4.446e-02 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.018 3.068e-09 3.042e-03 2.540e-15 4.265e+00 1.439e+00 1.720e-51 2.106e-26 1.717e-03 bad-chisq
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.019 2.207e-09 2.994e-03 2.092e-15 4.272e+00 1.439e+00 1.768e-51 2.440e-26 1.699e-03 bad-chisq
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.019 1.588e-09 2.898e-03 1.436e-15 4.285e+00 1.439e+00 1.728e-51 2.568e-26 1.684e-03 bad-chisq
+AAAAAAAAAAAAAAA 0.415 7.746e-25 1.283e-14 6.205e-15 6.825e-01 8.853e-02 2.365e-43 4.518e-28 5.596e-02 NA
+AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCT 0.149 8.428e-24 6.366e-22 1.360e-25 1.325e+00 1.376e-01 4.008e-54 4.526e-24 1.321e-03 NA
+AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.149 6.165e-24 3.870e-22 7.165e-26 1.331e+00 1.376e-01 3.558e-54 4.274e-24 1.247e-03 NA
+AAAAAAAAAAAAAAGTGTTAAAATAAA 0.151 1.756e-24 4.382e-23 4.170e-27 1.361e+00 1.376e-01 3.006e-54 4.170e-24 1.554e-03 NA
+AAAAAAAAAAAAAAGTGTTAAAA 0.151 1.281e-24 3.642e-23 3.280e-27 1.363e+00 1.375e-01 2.972e-54 4.515e-24 1.496e-03 NA
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATG 0.109 1.943e-49 4.637e-09 6.233e-16 3.205e+00 5.465e-01 2.801e-18 1.034e-35 4.308e-03 bfgs-fail
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.109 1.943e-49 4.637e-09 6.233e-16 3.205e+00 5.465e-01 2.801e-18 1.034e-35 4.308e-03 bfgs-fail
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.110 8.940e-50 3.879e-09 4.570e-16 3.222e+00 5.467e-01 8.326e-18 7.883e-36 4.428e-03 bfgs-fail
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.110 6.062e-50 3.308e-09 2.476e-16 3.232e+00 5.460e-01 8.081e-18 7.666e-36 4.387e-03 bfgs-fail
+AAAAAAAAAAAAAAGTTCAAAATG 0.110 6.062e-50 3.308e-09 2.476e-16 3.232e+00 5.460e-01 8.081e-18 7.666e-36 4.387e-03 bfgs-fail
+AAAAAAAAAAAAAAGTTCAAAAT 0.111 2.785e-50 1.911e-09 4.033e-17 3.269e+00 5.439e-01 7.443e-18 5.283e-36 4.884e-03 bfgs-fail
+AAAAAAAAAAAAAAGT 0.255 3.647e-72 2.801e-29 2.449e-34 1.476e+00 1.314e-01 1.487e-30 2.117e-30 2.707e-03 NA
+AAAAAAAAAAAAAAG 0.266 1.147e-67 5.016e-28 6.847e-32 1.357e+00 1.236e-01 3.835e-32 3.870e-30 3.166e-03 NA
+AAAAAAAAAAAAAATGCATATTTATATTAGCAAAA 0.140 4.769e-32 2.327e-20 1.336e-24 1.484e+00 1.605e-01 6.106e-50 4.846e-17 1.012e-02 NA
+AAAAAAAAAAAAAATGCATATTTATATTAG 0.141 7.311e-31 1.756e-19 3.495e-23 1.421e+00 1.573e-01 5.068e-50 2.832e-17 9.950e-03 NA
+AAAAAAAAAAAAAATGCATATTTATATTA 0.141 5.180e-31 1.289e-19 2.283e-23 1.425e+00 1.573e-01 4.790e-50 2.901e-17 9.971e-03 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.224 1.328e-27 1.974e-05 1.610e-05 5.409e-01 1.268e-01 1.588e-37 1.313e-29 3.052e-02 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.224 2.583e-27 2.763e-05 2.284e-05 5.302e-01 1.265e-01 1.104e-37 1.561e-29 2.970e-02 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.225 1.893e-27 2.698e-05 2.228e-05 5.311e-01 1.265e-01 1.330e-37 1.536e-29 2.980e-02 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.225 1.387e-27 2.629e-05 2.168e-05 5.320e-01 1.266e-01 1.608e-37 1.508e-29 2.990e-02 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.229 6.268e-29 4.380e-06 3.352e-06 5.753e-01 1.253e-01 5.054e-37 5.966e-30 3.409e-02 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.230 4.700e-28 1.251e-05 1.003e-05 5.440e-01 1.245e-01 1.774e-37 9.879e-30 3.072e-02 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.230 4.700e-28 1.251e-05 1.003e-05 5.440e-01 1.245e-01 1.774e-37 9.879e-30 3.072e-02 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.230 9.119e-28 1.538e-05 1.246e-05 5.373e-01 1.243e-01 1.335e-37 1.107e-29 2.973e-02 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.245 7.266e-24 9.860e-05 8.615e-05 4.630e-01 1.189e-01 3.108e-39 2.629e-29 5.224e-02 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.024 3.069e-11 1.039e-05 4.030e-20 3.688e+00 8.364e-01 1.902e-52 5.530e-27 4.574e-04 bad-chisq
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.025 2.205e-11 1.014e-05 3.333e-20 3.692e+00 8.363e-01 1.955e-52 6.389e-27 4.524e-04 bad-chisq
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.025 1.584e-11 9.635e-06 2.298e-20 3.700e+00 8.361e-01 1.909e-52 6.706e-27 4.473e-04 bad-chisq
+AAAAAAAAAAAAAATGCA 0.461 1.777e-48 5.752e-16 2.756e-16 7.181e-01 8.869e-02 8.318e-40 3.903e-25 7.841e-02 NA
+AAAAAAAAAAAAAAT 0.489 2.057e-41 3.340e-13 2.215e-13 6.338e-01 8.703e-02 2.427e-41 2.455e-25 5.026e-02 NA
+AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTA 0.164 2.985e-24 2.695e-22 1.760e-25 1.258e+00 1.296e-01 3.321e-54 1.287e-23 6.145e-04 NA
+AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.165 2.190e-24 1.634e-22 9.425e-26 1.265e+00 1.295e-01 2.954e-54 1.220e-23 5.775e-04 NA
+AAAAAAAAAAAAAGTGTTAAAATAAA 0.166 6.307e-25 1.865e-23 6.099e-27 1.292e+00 1.295e-01 2.494e-54 1.212e-23 7.050e-04 NA
+AAAAAAAAAAAAAGTGTTAAAA 0.166 4.614e-25 1.538e-23 4.796e-27 1.294e+00 1.294e-01 2.460e-54 1.310e-23 6.768e-04 NA
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGA 0.141 2.170e-65 8.899e-15 1.826e-29 4.399e+00 5.671e-01 4.219e-02 4.912e-40 1.102e-02 bfgs-fail
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.141 2.170e-65 8.899e-15 1.826e-29 4.399e+00 5.671e-01 4.219e-02 4.912e-40 1.102e-02 bfgs-fail
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.141 9.450e-66 7.955e-15 3.731e-30 4.592e+00 5.909e-01 1.584e-01 1.595e-39 1.312e-02 bfgs-fail
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.142 6.232e-66 7.324e-15 2.016e-30 4.592e+00 5.902e-01 1.564e-01 1.559e-39 1.301e-02 bfgs-fail
+AAAAAAAAAAAAAGTTCAAAATG 0.142 6.232e-66 7.324e-15 2.016e-30 4.592e+00 5.902e-01 1.564e-01 1.559e-39 1.301e-02 bfgs-fail
+AAAAAAAAAAAAAGTTCAAAAT 0.142 2.709e-66 5.153e-15 2.968e-31 4.604e+00 5.883e-01 1.562e-01 1.054e-39 1.454e-02 bfgs-fail
+AAAAAAAAAAAAAGTT 0.145 5.469e-64 1.173e-14 6.208e-25 3.394e+00 4.395e-01 1.551e-03 1.632e-37 1.334e-02 bfgs-fail
+AAAAAAAAAAAAAGT 0.302 2.900e-82 9.505e-30 6.846e-34 1.379e+00 1.218e-01 1.015e-23 9.352e-32 1.672e-03 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.253 2.742e-16 3.018e-02 2.969e-02 2.513e-01 1.159e-01 2.259e-42 1.149e-27 1.025e-02 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.253 4.374e-16 3.578e-02 3.525e-02 2.430e-01 1.158e-01 1.675e-42 1.323e-27 1.008e-02 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.253 3.437e-16 3.537e-02 3.485e-02 2.436e-01 1.158e-01 1.892e-42 1.317e-27 1.010e-02 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.254 2.699e-16 3.493e-02 3.441e-02 2.443e-01 1.158e-01 2.147e-42 1.309e-27 1.012e-02 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.262 8.528e-19 3.151e-04 2.885e-04 4.118e-01 1.143e-01 1.598e-40 5.360e-29 1.636e-02 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.263 6.139e-18 8.619e-04 8.063e-04 3.788e-01 1.137e-01 5.267e-41 9.762e-29 1.487e-02 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.263 6.139e-18 8.619e-04 8.063e-04 3.788e-01 1.137e-01 5.267e-41 9.762e-29 1.487e-02 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.264 9.968e-18 9.958e-04 9.345e-04 3.737e-01 1.135e-01 4.244e-41 1.081e-28 1.455e-02 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.279 3.649e-15 2.386e-03 2.280e-03 3.328e-01 1.096e-01 3.490e-42 1.777e-28 2.473e-02 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.025 7.923e-11 2.424e-06 3.692e-16 3.403e+00 7.218e-01 2.812e-52 6.422e-27 4.756e-04 bfgs-fail
+AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.025 5.698e-11 2.354e-06 3.063e-16 3.407e+00 7.217e-01 2.887e-52 7.393e-27 4.703e-04 bfgs-fail
+AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.026 4.097e-11 2.214e-06 2.128e-16 3.415e+00 7.215e-01 2.816e-52 7.744e-27 4.648e-04 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATAT 0.012 4.010e-01 6.728e-01 6.705e-01 1.541e-01 3.648e-01 2.976e-50 8.783e-27 5.543e-03 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATA 0.013 4.586e-01 7.535e-01 7.523e-01 1.107e-01 3.526e-01 3.023e-50 8.770e-27 5.561e-03 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATAT 0.017 1.949e-01 2.294e-01 2.201e-01 3.884e-01 3.232e-01 2.423e-50 9.731e-27 5.736e-03 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTATATATATATATATAT 0.019 6.324e-02 5.179e-02 4.391e-02 6.196e-01 3.186e-01 1.971e-50 1.037e-26 6.270e-03 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.036 2.765e-03 3.965e-08 4.204e-09 1.337e+00 2.432e-01 6.933e-51 4.650e-27 2.304e-02 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.036 2.246e-03 3.176e-08 3.125e-09 1.344e+00 2.428e-01 6.863e-51 4.858e-27 2.303e-02 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.038 1.689e-02 4.919e-07 1.219e-07 1.151e+00 2.286e-01 6.291e-51 4.285e-27 1.725e-02 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTATATATA 0.038 1.416e-02 3.903e-07 9.148e-08 1.159e+00 2.281e-01 5.935e-51 4.234e-27 1.742e-02 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTATATAT 0.038 1.184e-02 3.178e-07 7.072e-08 1.166e+00 2.278e-01 5.846e-51 4.391e-27 1.748e-02 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTATATA 0.039 9.873e-03 2.164e-07 4.444e-08 1.180e+00 2.273e-01 5.411e-51 4.213e-27 1.772e-02 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTATA 0.041 1.701e-02 6.065e-07 1.713e-07 1.092e+00 2.190e-01 4.963e-51 4.374e-27 1.547e-02 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTGTATATATATAT 0.030 6.222e-05 3.693e-03 3.388e-03 -6.454e-01 2.223e-01 1.371e-49 6.931e-27 6.964e-03 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTGTATATATATA 0.030 3.824e-05 2.612e-03 2.360e-03 -6.665e-01 2.214e-01 1.458e-49 6.893e-27 6.984e-03 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTGTATATATAT 0.031 1.371e-05 1.231e-03 1.078e-03 -7.022e-01 2.173e-01 1.646e-49 6.456e-27 7.006e-03 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTGTATATATA 0.032 2.179e-05 1.411e-03 1.255e-03 -6.901e-01 2.162e-01 1.595e-49 6.202e-27 6.998e-03 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTGTATAT 0.032 5.266e-05 3.436e-03 3.187e-03 -6.241e-01 2.133e-01 1.467e-49 6.614e-27 6.886e-03 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTG 0.033 3.276e-05 2.494e-03 2.282e-03 -6.427e-01 2.125e-01 1.577e-49 6.709e-27 6.922e-03 bfgs-fail
+AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTAA 0.170 5.037e-25 1.247e-23 5.351e-27 1.276e+00 1.273e-01 1.339e-54 9.944e-24 4.452e-04 NA
+AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.171 3.688e-25 7.491e-24 2.832e-27 1.282e+00 1.273e-01 1.186e-54 9.410e-24 4.168e-04 NA
+AAAAAAAAAAAAGTGTTAAAATAAA 0.172 1.054e-25 8.294e-25 1.770e-28 1.308e+00 1.272e-01 9.921e-55 9.270e-24 5.090e-04 NA
+AAAAAAAAAAAAGTGTTAAAA 0.172 7.697e-26 6.811e-25 1.386e-28 1.311e+00 1.272e-01 9.776e-55 1.001e-23 4.878e-04 NA
+AAAAAAAAAAAAGTG 0.173 1.590e-25 1.175e-24 3.043e-28 1.299e+00 1.267e-01 1.070e-54 1.009e-23 4.895e-04 NA
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGAG 0.147 7.347e-68 2.483e-15 1.154e-32 4.502e+00 5.687e-01 2.213e-01 8.510e-39 1.398e-02 bfgs-fail
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.147 7.347e-68 2.483e-15 1.154e-32 4.502e+00 5.687e-01 2.213e-01 8.510e-39 1.398e-02 bfgs-fail
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.147 3.168e-68 4.988e-15 1.494e-33 4.795e+00 6.125e-01 6.360e-01 9.722e-38 1.768e-02 bfgs-fail
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.148 2.079e-68 4.608e-15 8.072e-34 4.794e+00 6.116e-01 6.308e-01 9.357e-38 1.754e-02 bfgs-fail
+AAAAAAAAAAAAGTTCAAAATGCA 0.148 1.364e-68 4.306e-15 4.783e-34 4.795e+00 6.111e-01 6.300e-01 9.094e-38 1.780e-02 bfgs-fail
+AAAAAAAAAAAAGTTCAAAATG 0.148 1.364e-68 4.306e-15 4.783e-34 4.795e+00 6.111e-01 6.300e-01 9.094e-38 1.780e-02 bfgs-fail
+AAAAAAAAAAAAGTTCAAAAT 0.149 5.868e-69 3.098e-15 6.891e-35 4.806e+00 6.092e-01 6.313e-01 6.053e-38 1.984e-02 bfgs-fail
+AAAAAAAAAAAAGTT 0.153 1.293e-66 3.709e-15 9.175e-28 3.355e+00 4.266e-01 5.507e-03 6.288e-37 1.660e-02 bfgs-fail
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.307 4.737e-03 6.252e-01 6.250e-01 5.208e-02 1.066e-01 8.874e-47 2.083e-25 5.179e-03 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.307 4.313e-03 5.843e-01 5.841e-01 5.830e-02 1.066e-01 1.043e-46 1.799e-25 5.123e-03 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.308 4.604e-03 5.949e-01 5.947e-01 5.657e-02 1.064e-01 9.467e-47 1.830e-25 5.138e-03 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGT 0.308 5.387e-03 6.423e-01 6.421e-01 4.936e-02 1.063e-01 7.549e-47 2.151e-25 5.209e-03 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.308 4.911e-03 6.394e-01 6.393e-01 4.979e-02 1.063e-01 8.087e-47 2.156e-25 5.205e-03 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.309 4.474e-03 6.363e-01 6.361e-01 5.027e-02 1.063e-01 8.698e-47 2.159e-25 5.201e-03 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.026 7.983e-09 1.187e-07 2.153e-12 2.292e+00 4.323e-01 3.714e-52 5.292e-27 7.219e-04 bfgs-fail
+AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.027 5.797e-09 1.115e-07 1.812e-12 2.296e+00 4.321e-01 3.793e-52 6.006e-27 7.136e-04 bfgs-fail
+AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.027 4.208e-09 9.826e-08 1.297e-12 2.304e+00 4.319e-01 3.687e-52 6.252e-27 7.043e-04 bfgs-fail
+AAAAAAAAAAAGAAAGATAGTTTAACCTATGAAAAAATCACTAAAAATTTTTGCTACATCTAAATAGTTTGACCTCTTCGGGGTTGCTTTGGTCGTTGGG 0.066 5.096e-27 1.832e-15 8.911e-18 2.712e+00 3.409e-01 7.003e-59 9.408e-32 2.717e-13 bfgs-fail
+AAAAAAAAAAAGAAAG 0.068 1.613e-26 4.647e-15 2.756e-17 2.582e+00 3.294e-01 2.754e-58 7.757e-32 7.206e-13 bfgs-fail
+AAAAAAAAAAAGAAA 0.096 8.007e-38 1.215e-01 1.202e-01 3.025e-01 1.953e-01 1.438e-49 1.023e-24 1.430e-03 NA
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATAT 0.011 8.313e-01 7.011e-01 6.997e-01 1.465e-01 3.817e-01 3.094e-50 8.227e-27 5.640e-03 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATCATAAGATAAGTTTTTTATAAAGACACGCAAATGAGTATAAATCAGCTAATTTT 0.010 1.105e-05 2.065e-02 5.274e-09 3.354e+00 1.449e+00 1.058e-50 2.921e-26 4.735e-03 bad-chisq
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATAT 0.034 3.749e-01 3.366e-01 3.324e-01 2.119e-01 2.205e-01 2.275e-50 1.134e-26 5.480e-03 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATA 0.035 2.936e-01 2.686e-01 2.638e-01 2.392e-01 2.162e-01 2.215e-50 1.283e-26 5.432e-03 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATAT 0.051 8.637e-03 6.725e-04 4.456e-04 6.505e-01 1.913e-01 7.329e-51 2.085e-26 7.732e-03 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATA 0.051 6.169e-03 4.778e-04 3.042e-04 6.663e-01 1.908e-01 7.040e-51 2.243e-26 7.815e-03 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATAT 0.060 2.808e-04 1.911e-06 6.003e-07 8.746e-01 1.836e-01 3.679e-51 2.966e-26 1.280e-02 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATA 0.060 2.307e-04 1.552e-06 4.871e-07 8.813e-01 1.834e-01 3.605e-51 3.075e-26 1.297e-02 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATAT 0.069 1.145e-06 3.596e-12 7.459e-14 1.268e+00 1.823e-01 1.418e-51 2.458e-26 3.940e-02 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATA 0.070 1.206e-06 2.683e-12 5.557e-14 1.265e+00 1.808e-01 1.335e-51 2.371e-26 4.041e-02 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATAT 0.081 2.783e-09 1.022e-19 1.751e-23 1.620e+00 1.783e-01 2.426e-51 2.347e-26 2.273e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATA 0.086 1.446e-07 1.433e-17 3.499e-20 1.416e+00 1.660e-01 1.162e-51 1.707e-26 1.371e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATTATAAGATAAGTTTTTTATAAAGACACGCAAATGAGTATAAATCAGCTAATTTTTGGTTTA 0.011 2.449e-03 1.136e-01 1.076e-01 -6.065e-01 3.833e-01 6.125e-50 8.889e-27 7.133e-03 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.098 3.388e-05 4.795e-15 1.633e-16 1.161e+00 1.482e-01 6.949e-52 1.220e-26 5.911e-02 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.100 3.393e-05 4.451e-15 1.582e-16 1.151e+00 1.467e-01 6.708e-52 1.345e-26 5.806e-02 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.103 3.513e-04 1.080e-13 8.498e-15 1.062e+00 1.428e-01 5.697e-52 9.039e-27 4.292e-02 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATA 0.103 4.767e-04 1.821e-13 1.592e-14 1.048e+00 1.423e-01 5.684e-52 8.794e-27 4.183e-02 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATAT 0.104 3.478e-04 1.332e-13 1.099e-14 1.053e+00 1.421e-01 5.653e-52 9.937e-27 4.189e-02 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATA 0.104 2.965e-04 9.057e-14 7.039e-15 1.059e+00 1.420e-01 5.229e-52 9.618e-27 4.239e-02 NA
+AAAAAAAAAAAGCATTTTACTATTTTATAT 0.104 2.525e-04 7.361e-14 5.510e-15 1.062e+00 1.419e-01 5.037e-52 9.806e-27 4.250e-02 NA
+AAAAAAAAAAAGCATTTTACTATTTTATA 0.108 5.237e-04 2.913e-13 2.970e-14 1.014e+00 1.389e-01 4.409e-52 9.751e-27 3.589e-02 NA
+AAAAAAAAAAAGCATTTTACTATTTTA 0.108 4.490e-04 1.752e-13 1.659e-14 1.024e+00 1.389e-01 4.117e-52 9.286e-27 3.785e-02 NA
+AAAAAAAAAAAGCATTTTACTATTTTGTATATATATATATATAT 0.076 2.525e-06 1.508e-04 1.502e-04 -5.398e-01 1.424e-01 8.933e-49 1.010e-26 6.291e-03 bfgs-fail
diff --git a/test/test6.e.txt b/test/test6.e.txt
index 1cbf1e4..ab095aa 100644
--- a/test/test6.e.txt
+++ b/test/test6.e.txt
@@ -1,6 +1,7 @@
seer: sequence element enrichment analysis
Detected binary phenotype
-Read 201 total k-mers. Of these:
- Filtered 27 k-mers
+Read 200 total k-mers. Of these:
+ Pre-filtered 26 k-mers
Tested 174 k-mers
+ Printed 174 k-mers
Done.
diff --git a/test/test6.o.txt b/test/test6.o.txt
index dabdda0..30b1145 100644
--- a/test/test6.o.txt
+++ b/test/test6.o.txt
@@ -1,175 +1,175 @@
-sequence maf unadj_p_val p_val beta se covar1_p covar2_p covar3_p comments
-AAAAAAAAAAAAAAAAAAAT 0.055 1.379e-02 4.776e-02 1.819e+00 9.189e-01 4.800e-01 9.382e-01 9.666e-01 bad-chisq
-AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAA 0.080 6.443e-03 1.346e-02 1.919e+00 7.764e-01 3.663e-01 9.671e-01 7.761e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.080 6.443e-03 1.346e-02 1.919e+00 7.764e-01 3.663e-01 9.671e-01 7.761e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.080 6.443e-03 1.346e-02 1.919e+00 7.764e-01 3.663e-01 9.671e-01 7.761e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTATCTT 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTATCT 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTAT 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATAT 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCAT 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCA 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATG 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAAT 0.100 1.784e-02 2.142e-02 1.343e+00 5.840e-01 3.693e-01 9.802e-01 8.779e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAG 0.100 1.784e-02 2.303e-02 1.325e+00 5.830e-01 4.360e-01 9.382e-01 8.409e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.100 1.784e-02 2.303e-02 1.325e+00 5.830e-01 4.360e-01 9.382e-01 8.409e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.100 1.784e-02 2.303e-02 1.325e+00 5.830e-01 4.360e-01 9.382e-01 8.409e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.115 4.668e-03 7.813e-03 1.524e+00 5.730e-01 4.440e-01 8.681e-01 8.570e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.115 4.668e-03 7.813e-03 1.524e+00 5.730e-01 4.440e-01 8.681e-01 8.570e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTT 0.120 2.937e-03 5.542e-03 1.581e+00 5.700e-01 4.436e-01 8.702e-01 8.947e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCT 0.120 2.937e-03 5.542e-03 1.581e+00 5.700e-01 4.436e-01 8.702e-01 8.947e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTAT 0.130 4.631e-03 7.210e-03 1.401e+00 5.215e-01 4.380e-01 8.632e-01 9.925e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATAT 0.130 4.631e-03 7.210e-03 1.401e+00 5.215e-01 4.380e-01 8.632e-01 9.925e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCAT 0.130 4.631e-03 7.210e-03 1.401e+00 5.215e-01 4.380e-01 8.632e-01 9.925e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCA 0.130 4.631e-03 7.210e-03 1.401e+00 5.215e-01 4.380e-01 8.632e-01 9.925e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATG 0.130 4.631e-03 7.210e-03 1.401e+00 5.215e-01 4.380e-01 8.632e-01 9.925e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAT 0.145 1.460e-02 1.692e-02 1.103e+00 4.617e-01 4.254e-01 8.504e-01 9.926e-01 bfgs-fail
-AAAAAAAAAAAAAAAAA 0.175 3.743e-03 5.035e-03 1.214e+00 4.329e-01 4.415e-01 8.548e-01 8.861e-01 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGT 0.140 2.869e-01 2.909e-01 4.492e-01 4.253e-01 4.839e-01 8.594e-01 9.716e-01 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.140 2.869e-01 2.909e-01 4.492e-01 4.253e-01 4.839e-01 8.594e-01 9.716e-01 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.140 2.869e-01 2.909e-01 4.492e-01 4.253e-01 4.839e-01 8.594e-01 9.716e-01 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.140 2.869e-01 2.909e-01 4.492e-01 4.253e-01 4.839e-01 8.594e-01 9.716e-01 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.155 1.208e-01 1.251e-01 6.365e-01 4.150e-01 4.853e-01 8.472e-01 9.691e-01 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.185 3.320e-01 3.402e-01 3.586e-01 3.760e-01 4.944e-01 8.582e-01 9.872e-01 NA
-AAAAAAAAAAAAAAAATGCATATTTATCTT 0.190 2.614e-01 2.693e-01 4.125e-01 3.734e-01 4.941e-01 8.688e-01 9.826e-01 NA
-AAAAAAAAAAAAAAAATGCATATTTATCT 0.190 2.614e-01 2.693e-01 4.125e-01 3.734e-01 4.941e-01 8.688e-01 9.826e-01 NA
-AAAAAAAAAAAAAAAATGCATATTTAT 0.200 2.864e-01 2.939e-01 3.832e-01 3.650e-01 4.914e-01 8.630e-01 9.528e-01 NA
-AAAAAAAAAAAAAAAATGCATAT 0.200 2.864e-01 2.939e-01 3.832e-01 3.650e-01 4.914e-01 8.630e-01 9.528e-01 NA
-AAAAAAAAAAAAAAAATGCAT 0.200 2.864e-01 2.939e-01 3.832e-01 3.650e-01 4.914e-01 8.630e-01 9.528e-01 NA
-AAAAAAAAAAAAAAAATGCA 0.200 2.864e-01 2.939e-01 3.832e-01 3.650e-01 4.914e-01 8.630e-01 9.528e-01 NA
-AAAAAAAAAAAAAAAATG 0.200 2.864e-01 2.939e-01 3.832e-01 3.650e-01 4.914e-01 8.630e-01 9.528e-01 NA
-AAAAAAAAAAAAAAAAT 0.215 4.162e-01 4.195e-01 2.846e-01 3.526e-01 4.865e-01 8.436e-01 9.457e-01 NA
-AAAAAAAAAAAAAAAA 0.250 1.396e-01 1.407e-01 4.992e-01 3.389e-01 4.742e-01 8.688e-01 9.113e-01 NA
-AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGC 0.065 1.003e-01 1.073e-01 1.090e+00 6.767e-01 4.461e-01 7.806e-01 8.882e-01 bfgs-fail
-AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.065 1.003e-01 1.073e-01 1.090e+00 6.767e-01 4.461e-01 7.806e-01 8.882e-01 bfgs-fail
-AAAAAAAAAAAAAAAGTGTTAAAATAAA 0.070 6.602e-02 7.803e-02 1.179e+00 6.691e-01 4.705e-01 8.135e-01 9.195e-01 bfgs-fail
-AAAAAAAAAAAAAAAGTGTTAAAA 0.070 6.602e-02 7.803e-02 1.179e+00 6.691e-01 4.705e-01 8.135e-01 9.195e-01 bfgs-fail
-AAAAAAAAAAAAAAAGT 0.075 4.301e-02 5.301e-02 1.284e+00 6.636e-01 4.553e-01 7.770e-01 9.185e-01 bfgs-fail
-AAAAAAAAAAAAAAAG 0.090 4.172e-02 5.147e-02 1.143e+00 5.868e-01 5.056e-01 7.789e-01 9.206e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.185 1.815e-01 1.739e-01 5.194e-01 3.819e-01 4.553e-01 8.548e-01 9.507e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.185 1.815e-01 1.739e-01 5.194e-01 3.819e-01 4.553e-01 8.548e-01 9.507e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.185 1.815e-01 1.739e-01 5.194e-01 3.819e-01 4.553e-01 8.548e-01 9.507e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.185 1.815e-01 1.739e-01 5.194e-01 3.819e-01 4.553e-01 8.548e-01 9.507e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.190 1.374e-01 1.356e-01 5.656e-01 3.790e-01 4.660e-01 8.608e-01 9.580e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.190 1.374e-01 1.356e-01 5.656e-01 3.790e-01 4.660e-01 8.608e-01 9.580e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.190 1.374e-01 1.356e-01 5.656e-01 3.790e-01 4.660e-01 8.608e-01 9.580e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.190 1.374e-01 1.356e-01 5.656e-01 3.790e-01 4.660e-01 8.608e-01 9.580e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.210 8.728e-02 8.829e-02 6.240e-01 3.661e-01 4.822e-01 8.481e-01 9.464e-01 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
-AAAAAAAAAAAAAAA 0.385 1.865e-03 2.396e-03 9.314e-01 3.068e-01 6.072e-01 9.797e-01 9.386e-01 NA
-AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCT 0.105 2.560e-01 2.732e-01 5.374e-01 4.905e-01 5.197e-01 8.365e-01 8.727e-01 bfgs-fail
-AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.105 2.560e-01 2.732e-01 5.374e-01 4.905e-01 5.197e-01 8.365e-01 8.727e-01 bfgs-fail
-AAAAAAAAAAAAAAGTGTTAAAATAAA 0.110 1.877e-01 2.085e-01 6.109e-01 4.857e-01 5.400e-01 8.626e-01 8.852e-01 bfgs-fail
-AAAAAAAAAAAAAAGTGTTAAAA 0.110 1.877e-01 2.085e-01 6.109e-01 4.857e-01 5.400e-01 8.626e-01 8.852e-01 bfgs-fail
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATG 0.040 5.932e-02 1.118e-01 1.526e+00 9.600e-01 4.105e-01 6.984e-01 9.276e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.040 5.932e-02 1.118e-01 1.526e+00 9.600e-01 4.105e-01 6.984e-01 9.276e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.040 5.932e-02 1.118e-01 1.526e+00 9.600e-01 4.105e-01 6.984e-01 9.276e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.045 3.651e-02 7.759e-02 1.669e+00 9.458e-01 4.055e-01 6.478e-01 9.276e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAATG 0.045 3.651e-02 7.759e-02 1.669e+00 9.458e-01 4.055e-01 6.478e-01 9.276e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAAT 0.045 3.651e-02 7.759e-02 1.669e+00 9.458e-01 4.055e-01 6.478e-01 9.276e-01 bad-chisq
-AAAAAAAAAAAAAAGT 0.165 8.715e-03 1.143e-02 1.102e+00 4.358e-01 5.330e-01 7.826e-01 8.222e-01 bfgs-fail
-AAAAAAAAAAAAAAG 0.185 1.493e-02 1.838e-02 9.497e-01 4.028e-01 5.504e-01 8.143e-01 8.662e-01 NA
-AAAAAAAAAAAAAATGCATATTTATATTAGCAAAA 0.125 1.834e-03 4.234e-03 1.621e+00 5.666e-01 5.379e-01 7.851e-01 8.786e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATATTAG 0.125 1.834e-03 4.234e-03 1.621e+00 5.666e-01 5.379e-01 7.851e-01 8.786e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATATTA 0.130 1.137e-03 2.841e-03 1.687e+00 5.654e-01 4.903e-01 7.845e-01 8.269e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.205 3.884e-01 3.532e-01 3.367e-01 3.626e-01 4.493e-01 8.084e-01 9.819e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.205 3.884e-01 3.532e-01 3.367e-01 3.626e-01 4.493e-01 8.084e-01 9.819e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.205 3.884e-01 3.532e-01 3.367e-01 3.626e-01 4.493e-01 8.084e-01 9.819e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.205 3.884e-01 3.532e-01 3.367e-01 3.626e-01 4.493e-01 8.084e-01 9.819e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.210 3.115e-01 2.878e-01 3.821e-01 3.594e-01 4.520e-01 8.114e-01 9.820e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.210 3.115e-01 2.878e-01 3.821e-01 3.594e-01 4.520e-01 8.114e-01 9.820e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.210 3.115e-01 2.878e-01 3.821e-01 3.594e-01 4.520e-01 8.114e-01 9.820e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.210 3.115e-01 2.878e-01 3.821e-01 3.594e-01 4.520e-01 8.114e-01 9.820e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.230 2.114e-01 1.970e-01 4.501e-01 3.489e-01 4.571e-01 8.013e-01 9.659e-01 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
-AAAAAAAAAAAAAATGCA 0.410 1.633e-03 1.796e-03 9.467e-01 3.032e-01 4.803e-01 9.829e-01 8.097e-01 NA
-AAAAAAAAAAAAAAT 0.450 6.645e-03 6.730e-03 8.011e-01 2.956e-01 4.906e-01 8.730e-01 8.226e-01 NA
-AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTA 0.115 2.951e-01 3.039e-01 4.807e-01 4.676e-01 4.956e-01 8.475e-01 8.782e-01 bfgs-fail
-AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.115 2.951e-01 3.039e-01 4.807e-01 4.676e-01 4.956e-01 8.475e-01 8.782e-01 bfgs-fail
-AAAAAAAAAAAAAGTGTTAAAATAAA 0.120 2.207e-01 2.352e-01 5.497e-01 4.631e-01 5.104e-01 8.738e-01 8.892e-01 bfgs-fail
-AAAAAAAAAAAAAGTGTTAAAA 0.120 2.207e-01 2.352e-01 5.497e-01 4.631e-01 5.104e-01 8.738e-01 8.892e-01 bfgs-fail
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGA 0.045 3.651e-02 7.286e-02 1.702e+00 9.489e-01 3.575e-01 6.424e-01 9.279e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.045 3.651e-02 7.286e-02 1.702e+00 9.489e-01 3.575e-01 6.424e-01 9.279e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.045 3.651e-02 7.286e-02 1.702e+00 9.489e-01 3.575e-01 6.424e-01 9.279e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.050 2.246e-02 5.079e-02 1.832e+00 9.377e-01 3.514e-01 5.898e-01 9.280e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAATG 0.050 2.246e-02 5.079e-02 1.832e+00 9.377e-01 3.514e-01 5.898e-01 9.280e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAAT 0.050 2.246e-02 5.079e-02 1.832e+00 9.377e-01 3.514e-01 5.898e-01 9.280e-01 bad-chisq
-AAAAAAAAAAAAAGTT 0.055 6.589e-02 6.390e-02 1.493e+00 8.058e-01 3.369e-01 6.244e-01 8.821e-01 bfgs-fail
-AAAAAAAAAAAAAGT 0.195 6.759e-03 7.875e-03 1.065e+00 4.007e-01 4.464e-01 7.831e-01 8.237e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.245 9.868e-01 9.328e-01 2.821e-02 3.343e-01 4.964e-01 7.845e-01 9.308e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.245 9.868e-01 9.328e-01 2.821e-02 3.343e-01 4.964e-01 7.845e-01 9.308e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.245 9.868e-01 9.328e-01 2.821e-02 3.343e-01 4.964e-01 7.845e-01 9.308e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.245 9.868e-01 9.328e-01 2.821e-02 3.343e-01 4.964e-01 7.845e-01 9.308e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.250 8.696e-01 8.247e-01 7.344e-02 3.316e-01 4.904e-01 7.833e-01 9.380e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.250 8.696e-01 8.247e-01 7.344e-02 3.316e-01 4.904e-01 7.833e-01 9.380e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.250 8.696e-01 8.247e-01 7.344e-02 3.316e-01 4.904e-01 7.833e-01 9.380e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.250 8.696e-01 8.247e-01 7.344e-02 3.316e-01 4.904e-01 7.833e-01 9.380e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.270 6.773e-01 6.411e-01 1.511e-01 3.241e-01 4.842e-01 7.764e-01 9.519e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
-AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
-AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.015 6.823e-01 7.220e-01 4.318e-01 1.214e+00 4.796e-01 7.715e-01 9.468e-01 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.015 6.823e-01 7.220e-01 4.318e-01 1.214e+00 4.796e-01 7.715e-01 9.468e-01 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.020 8.391e-01 9.382e-01 -8.000e-02 1.031e+00 5.114e-01 7.913e-01 9.217e-01 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTATATATA 0.020 8.391e-01 9.382e-01 -8.000e-02 1.031e+00 5.114e-01 7.913e-01 9.217e-01 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTATATAT 0.020 8.391e-01 9.382e-01 -8.000e-02 1.031e+00 5.114e-01 7.913e-01 9.217e-01 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTATATA 0.020 8.391e-01 9.382e-01 -8.000e-02 1.031e+00 5.114e-01 7.913e-01 9.217e-01 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTATA 0.025 4.947e-01 5.480e-01 -5.599e-01 9.318e-01 5.328e-01 8.223e-01 9.241e-01 bfgs-fail
-AAAAAAAAAAAAGCATTTTACTATTTTGTATATATATAT 0.010 8.864e-01 8.680e-01 -2.372e-01 1.428e+00 5.119e-01 7.799e-01 9.218e-01 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTGTATATATATA 0.010 8.864e-01 8.680e-01 -2.372e-01 1.428e+00 5.119e-01 7.799e-01 9.218e-01 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTGTATATATAT 0.010 8.864e-01 8.680e-01 -2.372e-01 1.428e+00 5.119e-01 7.799e-01 9.218e-01 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTGTATATATA 0.010 8.864e-01 8.680e-01 -2.372e-01 1.428e+00 5.119e-01 7.799e-01 9.218e-01 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTGTATAT 0.010 8.864e-01 8.680e-01 -2.372e-01 1.428e+00 5.119e-01 7.799e-01 9.218e-01 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTG 0.010 8.864e-01 8.680e-01 -2.372e-01 1.428e+00 5.119e-01 7.799e-01 9.218e-01 bad-chisq
-AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTAA 0.115 2.951e-01 3.039e-01 4.807e-01 4.676e-01 4.956e-01 8.475e-01 8.782e-01 bfgs-fail
-AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.115 2.951e-01 3.039e-01 4.807e-01 4.676e-01 4.956e-01 8.475e-01 8.782e-01 bfgs-fail
-AAAAAAAAAAAAGTGTTAAAATAAA 0.120 2.207e-01 2.352e-01 5.497e-01 4.631e-01 5.104e-01 8.738e-01 8.892e-01 bfgs-fail
-AAAAAAAAAAAAGTGTTAAAA 0.120 2.207e-01 2.352e-01 5.497e-01 4.631e-01 5.104e-01 8.738e-01 8.892e-01 bfgs-fail
-AAAAAAAAAAAAGTG 0.120 2.207e-01 2.352e-01 5.497e-01 4.631e-01 5.104e-01 8.738e-01 8.892e-01 bfgs-fail
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGAG 0.050 2.246e-02 5.397e-02 1.801e+00 9.344e-01 3.593e-01 6.842e-01 9.787e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.050 2.246e-02 5.397e-02 1.801e+00 9.344e-01 3.593e-01 6.842e-01 9.787e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.050 2.246e-02 5.397e-02 1.801e+00 9.344e-01 3.593e-01 6.842e-01 9.787e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.055 1.379e-02 3.811e-02 1.919e+00 9.255e-01 3.542e-01 6.309e-01 9.801e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATGCA 0.055 1.379e-02 3.811e-02 1.919e+00 9.255e-01 3.542e-01 6.309e-01 9.801e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATG 0.055 1.379e-02 3.811e-02 1.919e+00 9.255e-01 3.542e-01 6.309e-01 9.801e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAAT 0.055 1.379e-02 3.811e-02 1.919e+00 9.255e-01 3.542e-01 6.309e-01 9.801e-01 bad-chisq
-AAAAAAAAAAAAGTT 0.060 4.186e-02 4.602e-02 1.589e+00 7.966e-01 3.347e-01 6.554e-01 9.229e-01 bfgs-fail
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.290 3.637e-01 3.917e-01 -2.700e-01 3.152e-01 5.267e-01 8.373e-01 9.031e-01 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.295 4.451e-01 4.785e-01 -2.223e-01 3.136e-01 5.263e-01 8.204e-01 8.992e-01 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.295 4.451e-01 4.785e-01 -2.223e-01 3.136e-01 5.263e-01 8.204e-01 8.992e-01 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGT 0.295 4.451e-01 4.785e-01 -2.223e-01 3.136e-01 5.263e-01 8.204e-01 8.992e-01 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.295 4.451e-01 4.785e-01 -2.223e-01 3.136e-01 5.263e-01 8.204e-01 8.992e-01 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.295 4.451e-01 4.785e-01 -2.223e-01 3.136e-01 5.263e-01 8.204e-01 8.992e-01 NA
-AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.025 2.551e-01 4.089e-01 8.642e-01 1.047e+00 5.698e-01 8.546e-01 9.904e-01 bad-chisq
-AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.025 2.551e-01 4.089e-01 8.642e-01 1.047e+00 5.698e-01 8.546e-01 9.904e-01 bad-chisq
-AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.025 2.551e-01 4.089e-01 8.642e-01 1.047e+00 5.698e-01 8.546e-01 9.904e-01 bad-chisq
-AAAAAAAAAAAGAAAGATAGTTTAACCTATGAAAAAATCACTAAAAATTTTTGCTACATCTAAATAGTTTGACCTCTTCGGGGTTGCTTTGGTCGTTGGG 0.060 1.197e-01 1.306e-01 -9.544e-01 6.313e-01 4.785e-01 8.458e-01 9.541e-01 bfgs-fail
-AAAAAAAAAAAGAAAG 0.060 1.197e-01 1.306e-01 -9.544e-01 6.313e-01 4.785e-01 8.458e-01 9.541e-01 bfgs-fail
-AAAAAAAAAAAGAAA 0.085 6.398e-03 1.157e-02 -1.493e+00 5.915e-01 5.221e-01 8.265e-01 9.654e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATAT 0.010 1.986e-01 4.818e-01 1.350e+00 1.919e+00 5.863e-01 9.079e-01 9.551e-01 bad-chisq
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATCATAAGATAAGTTTTTTATAAAGACACGCAAATGAGTATAAATCAGCTAATTTT 0.010 1.986e-01 4.772e-01 1.357e+00 1.909e+00 5.991e-01 7.892e-01 9.846e-01 bad-chisq
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATAT 0.035 9.076e-01 9.512e-01 4.828e-02 7.884e-01 5.038e-01 7.870e-01 9.317e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATA 0.035 9.076e-01 9.512e-01 4.828e-02 7.884e-01 5.038e-01 7.870e-01 9.317e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATAT 0.045 4.716e-01 4.706e-01 5.278e-01 7.315e-01 5.102e-01 7.677e-01 9.929e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATA 0.045 4.716e-01 4.706e-01 5.278e-01 7.315e-01 5.102e-01 7.677e-01 9.929e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATAT 0.060 4.021e-01 3.758e-01 5.683e-01 6.417e-01 4.826e-01 7.479e-01 9.837e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATA 0.060 4.021e-01 3.758e-01 5.683e-01 6.417e-01 4.826e-01 7.479e-01 9.837e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATAT 0.080 2.491e-01 2.257e-01 6.864e-01 5.666e-01 4.363e-01 7.834e-01 9.647e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATA 0.080 2.491e-01 2.257e-01 6.864e-01 5.666e-01 4.363e-01 7.834e-01 9.647e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATAT 0.095 8.528e-02 7.112e-02 9.990e-01 5.535e-01 3.602e-01 7.502e-01 8.892e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATA 0.100 1.552e-01 1.338e-01 7.780e-01 5.188e-01 4.012e-01 7.586e-01 9.488e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATTATAAGATAAGTTTTTTATAAAGACACGCAAATGAGTATAAATCAGCTAATTTTTGGTTTA 0.015 5.368e-02 2.295e-01 -2.108e+00 1.755e+00 6.532e-01 8.589e-01 8.506e-01 bad-chisq
-AAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.115 5.475e-01 4.655e-01 3.394e-01 4.650e-01 4.382e-01 7.633e-01 9.943e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.115 5.475e-01 4.655e-01 3.394e-01 4.650e-01 4.382e-01 7.633e-01 9.943e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.120 7.264e-01 6.197e-01 2.258e-01 4.550e-01 4.539e-01 7.635e-01 9.715e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATA 0.120 7.264e-01 6.197e-01 2.258e-01 4.550e-01 4.539e-01 7.635e-01 9.715e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATAT 0.120 7.264e-01 6.197e-01 2.258e-01 4.550e-01 4.539e-01 7.635e-01 9.715e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATA 0.120 7.264e-01 6.197e-01 2.258e-01 4.550e-01 4.539e-01 7.635e-01 9.715e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATAT 0.120 7.264e-01 6.197e-01 2.258e-01 4.550e-01 4.539e-01 7.635e-01 9.715e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATA 0.125 9.144e-01 8.209e-01 9.981e-02 4.408e-01 4.836e-01 7.758e-01 9.423e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTA 0.125 9.144e-01 8.209e-01 9.981e-02 4.408e-01 4.836e-01 7.758e-01 9.423e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTGTATATATATATATATAT 0.055 6.589e-02 9.701e-02 1.330e+00 8.013e-01 6.909e-01 7.888e-01 9.626e-01 bfgs-fail
+sequence maf chisq_p_val wald_p_val lrt_p_val beta se covar1_p covar2_p covar3_p comments
+AAAAAAAAAAAAAAAAAAAT 0.055 1.379e-02 4.776e-02 1.055e-05 1.819e+00 9.189e-01 4.800e-01 9.382e-01 9.666e-01 bad-chisq
+AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAA 0.080 6.443e-03 1.346e-02 2.932e-03 1.919e+00 7.764e-01 3.663e-01 9.671e-01 7.761e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.080 6.443e-03 1.346e-02 2.932e-03 1.919e+00 7.764e-01 3.663e-01 9.671e-01 7.761e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.080 6.443e-03 1.346e-02 2.932e-03 1.919e+00 7.764e-01 3.663e-01 9.671e-01 7.761e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAATGCATATTTATCTT 0.085 3.982e-03 9.981e-03 1.681e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAATGCATATTTATCT 0.085 3.982e-03 9.981e-03 1.681e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAATGCATATTTAT 0.085 3.982e-03 9.981e-03 1.681e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAATGCATAT 0.085 3.982e-03 9.981e-03 1.681e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAATGCAT 0.085 3.982e-03 9.981e-03 1.681e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAATGCA 0.085 3.982e-03 9.981e-03 1.681e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAATG 0.085 3.982e-03 9.981e-03 1.681e-03 1.989e+00 7.721e-01 3.645e-01 9.618e-01 8.177e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAAT 0.100 1.784e-02 2.142e-02 1.157e-02 1.343e+00 5.840e-01 3.693e-01 9.802e-01 8.779e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAG 0.100 1.784e-02 2.303e-02 1.264e-02 1.325e+00 5.830e-01 4.360e-01 9.382e-01 8.409e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.100 1.784e-02 2.303e-02 1.264e-02 1.325e+00 5.830e-01 4.360e-01 9.382e-01 8.409e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.100 1.784e-02 2.303e-02 1.264e-02 1.325e+00 5.830e-01 4.360e-01 9.382e-01 8.409e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.115 4.668e-03 7.813e-03 2.787e-03 1.524e+00 5.730e-01 4.440e-01 8.681e-01 8.570e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.115 4.668e-03 7.813e-03 2.787e-03 1.524e+00 5.730e-01 4.440e-01 8.681e-01 8.570e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCATATTTATCTT 0.120 2.937e-03 5.542e-03 1.677e-03 1.581e+00 5.700e-01 4.436e-01 8.702e-01 8.947e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCATATTTATCT 0.120 2.937e-03 5.542e-03 1.677e-03 1.581e+00 5.700e-01 4.436e-01 8.702e-01 8.947e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCATATTTAT 0.130 4.631e-03 7.210e-03 3.037e-03 1.401e+00 5.215e-01 4.380e-01 8.632e-01 9.925e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCATAT 0.130 4.631e-03 7.210e-03 3.037e-03 1.401e+00 5.215e-01 4.380e-01 8.632e-01 9.925e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCAT 0.130 4.631e-03 7.210e-03 3.037e-03 1.401e+00 5.215e-01 4.380e-01 8.632e-01 9.925e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATGCA 0.130 4.631e-03 7.210e-03 3.037e-03 1.401e+00 5.215e-01 4.380e-01 8.632e-01 9.925e-01 bfgs-fail
+AAAAAAAAAAAAAAAAATG 0.130 4.631e-03 7.210e-03 3.037e-03 1.401e+00 5.215e-01 4.380e-01 8.632e-01 9.925e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAT 0.145 1.460e-02 1.692e-02 1.117e-02 1.103e+00 4.617e-01 4.254e-01 8.504e-01 9.926e-01 bfgs-fail
+AAAAAAAAAAAAAAAAA 0.175 3.743e-03 5.035e-03 2.714e-03 1.214e+00 4.329e-01 4.415e-01 8.548e-01 8.861e-01 bfgs-fail
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGT 0.140 2.869e-01 2.909e-01 2.845e-01 4.492e-01 4.253e-01 4.839e-01 8.594e-01 9.716e-01 bfgs-fail
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.140 2.869e-01 2.909e-01 2.845e-01 4.492e-01 4.253e-01 4.839e-01 8.594e-01 9.716e-01 bfgs-fail
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.140 2.869e-01 2.909e-01 2.845e-01 4.492e-01 4.253e-01 4.839e-01 8.594e-01 9.716e-01 bfgs-fail
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.140 2.869e-01 2.909e-01 2.845e-01 4.492e-01 4.253e-01 4.839e-01 8.594e-01 9.716e-01 bfgs-fail
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.155 1.208e-01 1.251e-01 1.167e-01 6.365e-01 4.150e-01 4.853e-01 8.472e-01 9.691e-01 bfgs-fail
+AAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.185 3.320e-01 3.402e-01 3.363e-01 3.586e-01 3.760e-01 4.944e-01 8.582e-01 9.872e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCTT 0.190 2.614e-01 2.693e-01 2.646e-01 4.125e-01 3.734e-01 4.941e-01 8.688e-01 9.826e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTATCT 0.190 2.614e-01 2.693e-01 2.646e-01 4.125e-01 3.734e-01 4.941e-01 8.688e-01 9.826e-01 NA
+AAAAAAAAAAAAAAAATGCATATTTAT 0.200 2.864e-01 2.939e-01 2.897e-01 3.832e-01 3.650e-01 4.914e-01 8.630e-01 9.528e-01 NA
+AAAAAAAAAAAAAAAATGCATAT 0.200 2.864e-01 2.939e-01 2.897e-01 3.832e-01 3.650e-01 4.914e-01 8.630e-01 9.528e-01 NA
+AAAAAAAAAAAAAAAATGCAT 0.200 2.864e-01 2.939e-01 2.897e-01 3.832e-01 3.650e-01 4.914e-01 8.630e-01 9.528e-01 NA
+AAAAAAAAAAAAAAAATGCA 0.200 2.864e-01 2.939e-01 2.897e-01 3.832e-01 3.650e-01 4.914e-01 8.630e-01 9.528e-01 NA
+AAAAAAAAAAAAAAAATG 0.200 2.864e-01 2.939e-01 2.897e-01 3.832e-01 3.650e-01 4.914e-01 8.630e-01 9.528e-01 NA
+AAAAAAAAAAAAAAAAT 0.215 4.162e-01 4.195e-01 4.171e-01 2.846e-01 3.526e-01 4.865e-01 8.436e-01 9.457e-01 NA
+AAAAAAAAAAAAAAAA 0.250 1.396e-01 1.407e-01 1.364e-01 4.992e-01 3.389e-01 4.742e-01 8.688e-01 9.113e-01 NA
+AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGC 0.065 1.003e-01 1.073e-01 8.325e-02 1.090e+00 6.767e-01 4.461e-01 7.806e-01 8.882e-01 bfgs-fail
+AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.065 1.003e-01 1.073e-01 8.325e-02 1.090e+00 6.767e-01 4.461e-01 7.806e-01 8.882e-01 bfgs-fail
+AAAAAAAAAAAAAAAGTGTTAAAATAAA 0.070 6.602e-02 7.803e-02 5.532e-02 1.179e+00 6.691e-01 4.705e-01 8.135e-01 9.195e-01 bfgs-fail
+AAAAAAAAAAAAAAAGTGTTAAAA 0.070 6.602e-02 7.803e-02 5.532e-02 1.179e+00 6.691e-01 4.705e-01 8.135e-01 9.195e-01 bfgs-fail
+AAAAAAAAAAAAAAAGT 0.075 4.301e-02 5.301e-02 3.321e-02 1.284e+00 6.636e-01 4.553e-01 7.770e-01 9.185e-01 bfgs-fail
+AAAAAAAAAAAAAAAG 0.090 4.172e-02 5.147e-02 3.558e-02 1.143e+00 5.868e-01 5.056e-01 7.789e-01 9.206e-01 bfgs-fail
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.185 1.815e-01 1.739e-01 1.678e-01 5.194e-01 3.819e-01 4.553e-01 8.548e-01 9.507e-01 bfgs-fail
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.185 1.815e-01 1.739e-01 1.678e-01 5.194e-01 3.819e-01 4.553e-01 8.548e-01 9.507e-01 bfgs-fail
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.185 1.815e-01 1.739e-01 1.678e-01 5.194e-01 3.819e-01 4.553e-01 8.548e-01 9.507e-01 bfgs-fail
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.185 1.815e-01 1.739e-01 1.678e-01 5.194e-01 3.819e-01 4.553e-01 8.548e-01 9.507e-01 bfgs-fail
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.190 1.374e-01 1.356e-01 1.292e-01 5.656e-01 3.790e-01 4.660e-01 8.608e-01 9.580e-01 bfgs-fail
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.190 1.374e-01 1.356e-01 1.292e-01 5.656e-01 3.790e-01 4.660e-01 8.608e-01 9.580e-01 bfgs-fail
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.190 1.374e-01 1.356e-01 1.292e-01 5.656e-01 3.790e-01 4.660e-01 8.608e-01 9.580e-01 bfgs-fail
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.190 1.374e-01 1.356e-01 1.292e-01 5.656e-01 3.790e-01 4.660e-01 8.608e-01 9.580e-01 bfgs-fail
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.210 8.728e-02 8.829e-02 8.257e-02 6.240e-01 3.661e-01 4.822e-01 8.481e-01 9.464e-01 NA
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.020 6.763e-02 2.379e-01 1.112e-04 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.379e-01 1.112e-04 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.379e-01 1.112e-04 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
+AAAAAAAAAAAAAAA 0.385 1.865e-03 2.396e-03 1.951e-03 9.314e-01 3.068e-01 6.072e-01 9.797e-01 9.386e-01 NA
+AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCT 0.105 2.560e-01 2.732e-01 2.638e-01 5.374e-01 4.905e-01 5.197e-01 8.365e-01 8.727e-01 bfgs-fail
+AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.105 2.560e-01 2.732e-01 2.638e-01 5.374e-01 4.905e-01 5.197e-01 8.365e-01 8.727e-01 bfgs-fail
+AAAAAAAAAAAAAAGTGTTAAAATAAA 0.110 1.877e-01 2.085e-01 1.976e-01 6.109e-01 4.857e-01 5.400e-01 8.626e-01 8.852e-01 bfgs-fail
+AAAAAAAAAAAAAAGTGTTAAAA 0.110 1.877e-01 2.085e-01 1.976e-01 6.109e-01 4.857e-01 5.400e-01 8.626e-01 8.852e-01 bfgs-fail
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATG 0.040 5.932e-02 1.118e-01 4.537e-05 1.526e+00 9.600e-01 4.105e-01 6.984e-01 9.276e-01 bad-chisq
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.040 5.932e-02 1.118e-01 4.537e-05 1.526e+00 9.600e-01 4.105e-01 6.984e-01 9.276e-01 bad-chisq
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.040 5.932e-02 1.118e-01 4.537e-05 1.526e+00 9.600e-01 4.105e-01 6.984e-01 9.276e-01 bad-chisq
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.045 3.651e-02 7.759e-02 2.553e-05 1.669e+00 9.458e-01 4.055e-01 6.478e-01 9.276e-01 bad-chisq
+AAAAAAAAAAAAAAGTTCAAAATG 0.045 3.651e-02 7.759e-02 2.553e-05 1.669e+00 9.458e-01 4.055e-01 6.478e-01 9.276e-01 bad-chisq
+AAAAAAAAAAAAAAGTTCAAAAT 0.045 3.651e-02 7.759e-02 2.553e-05 1.669e+00 9.458e-01 4.055e-01 6.478e-01 9.276e-01 bad-chisq
+AAAAAAAAAAAAAAGT 0.165 8.715e-03 1.143e-02 7.359e-03 1.102e+00 4.358e-01 5.330e-01 7.826e-01 8.222e-01 bfgs-fail
+AAAAAAAAAAAAAAG 0.185 1.493e-02 1.838e-02 1.395e-02 9.497e-01 4.028e-01 5.504e-01 8.143e-01 8.662e-01 NA
+AAAAAAAAAAAAAATGCATATTTATATTAGCAAAA 0.125 1.834e-03 4.234e-03 1.105e-03 1.621e+00 5.666e-01 5.379e-01 7.851e-01 8.786e-01 bfgs-fail
+AAAAAAAAAAAAAATGCATATTTATATTAG 0.125 1.834e-03 4.234e-03 1.105e-03 1.621e+00 5.666e-01 5.379e-01 7.851e-01 8.786e-01 bfgs-fail
+AAAAAAAAAAAAAATGCATATTTATATTA 0.130 1.137e-03 2.841e-03 6.038e-04 1.687e+00 5.654e-01 4.903e-01 7.845e-01 8.269e-01 bfgs-fail
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.205 3.884e-01 3.532e-01 3.500e-01 3.367e-01 3.626e-01 4.493e-01 8.084e-01 9.819e-01 bfgs-fail
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.205 3.884e-01 3.532e-01 3.500e-01 3.367e-01 3.626e-01 4.493e-01 8.084e-01 9.819e-01 bfgs-fail
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.205 3.884e-01 3.532e-01 3.500e-01 3.367e-01 3.626e-01 4.493e-01 8.084e-01 9.819e-01 bfgs-fail
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.205 3.884e-01 3.532e-01 3.500e-01 3.367e-01 3.626e-01 4.493e-01 8.084e-01 9.819e-01 bfgs-fail
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.210 3.115e-01 2.878e-01 2.839e-01 3.821e-01 3.594e-01 4.520e-01 8.114e-01 9.820e-01 bfgs-fail
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.210 3.115e-01 2.878e-01 2.839e-01 3.821e-01 3.594e-01 4.520e-01 8.114e-01 9.820e-01 bfgs-fail
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.210 3.115e-01 2.878e-01 2.839e-01 3.821e-01 3.594e-01 4.520e-01 8.114e-01 9.820e-01 bfgs-fail
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.210 3.115e-01 2.878e-01 2.839e-01 3.821e-01 3.594e-01 4.520e-01 8.114e-01 9.820e-01 bfgs-fail
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.230 2.114e-01 1.970e-01 1.926e-01 4.501e-01 3.489e-01 4.571e-01 8.013e-01 9.659e-01 NA
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.020 6.763e-02 2.379e-01 1.112e-04 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.379e-01 1.112e-04 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.379e-01 1.112e-04 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
+AAAAAAAAAAAAAATGCA 0.410 1.633e-03 1.796e-03 1.458e-03 9.467e-01 3.032e-01 4.803e-01 9.829e-01 8.097e-01 NA
+AAAAAAAAAAAAAAT 0.450 6.645e-03 6.730e-03 6.076e-03 8.011e-01 2.956e-01 4.906e-01 8.730e-01 8.226e-01 NA
+AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTA 0.115 2.951e-01 3.039e-01 2.964e-01 4.807e-01 4.676e-01 4.956e-01 8.475e-01 8.782e-01 bfgs-fail
+AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.115 2.951e-01 3.039e-01 2.964e-01 4.807e-01 4.676e-01 4.956e-01 8.475e-01 8.782e-01 bfgs-fail
+AAAAAAAAAAAAAGTGTTAAAATAAA 0.120 2.207e-01 2.352e-01 2.262e-01 5.497e-01 4.631e-01 5.104e-01 8.738e-01 8.892e-01 bfgs-fail
+AAAAAAAAAAAAAGTGTTAAAA 0.120 2.207e-01 2.352e-01 2.262e-01 5.497e-01 4.631e-01 5.104e-01 8.738e-01 8.892e-01 bfgs-fail
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGA 0.045 3.651e-02 7.286e-02 2.361e-05 1.702e+00 9.489e-01 3.575e-01 6.424e-01 9.279e-01 bad-chisq
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.045 3.651e-02 7.286e-02 2.361e-05 1.702e+00 9.489e-01 3.575e-01 6.424e-01 9.279e-01 bad-chisq
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.045 3.651e-02 7.286e-02 2.361e-05 1.702e+00 9.489e-01 3.575e-01 6.424e-01 9.279e-01 bad-chisq
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.050 2.246e-02 5.079e-02 1.291e-05 1.832e+00 9.377e-01 3.514e-01 5.898e-01 9.280e-01 bad-chisq
+AAAAAAAAAAAAAGTTCAAAATG 0.050 2.246e-02 5.079e-02 1.291e-05 1.832e+00 9.377e-01 3.514e-01 5.898e-01 9.280e-01 bad-chisq
+AAAAAAAAAAAAAGTTCAAAAT 0.050 2.246e-02 5.079e-02 1.291e-05 1.832e+00 9.377e-01 3.514e-01 5.898e-01 9.280e-01 bad-chisq
+AAAAAAAAAAAAAGTT 0.055 6.589e-02 6.390e-02 3.728e-02 1.493e+00 8.058e-01 3.369e-01 6.244e-01 8.821e-01 bfgs-fail
+AAAAAAAAAAAAAGT 0.195 6.759e-03 7.875e-03 5.237e-03 1.065e+00 4.007e-01 4.464e-01 7.831e-01 8.237e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.245 9.868e-01 9.328e-01 9.327e-01 2.821e-02 3.343e-01 4.964e-01 7.845e-01 9.308e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.245 9.868e-01 9.328e-01 9.327e-01 2.821e-02 3.343e-01 4.964e-01 7.845e-01 9.308e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.245 9.868e-01 9.328e-01 9.327e-01 2.821e-02 3.343e-01 4.964e-01 7.845e-01 9.308e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.245 9.868e-01 9.328e-01 9.327e-01 2.821e-02 3.343e-01 4.964e-01 7.845e-01 9.308e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.250 8.696e-01 8.247e-01 8.246e-01 7.344e-02 3.316e-01 4.904e-01 7.833e-01 9.380e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.250 8.696e-01 8.247e-01 8.246e-01 7.344e-02 3.316e-01 4.904e-01 7.833e-01 9.380e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.250 8.696e-01 8.247e-01 8.246e-01 7.344e-02 3.316e-01 4.904e-01 7.833e-01 9.380e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.250 8.696e-01 8.247e-01 8.246e-01 7.344e-02 3.316e-01 4.904e-01 7.833e-01 9.380e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.270 6.773e-01 6.411e-01 6.406e-01 1.511e-01 3.241e-01 4.842e-01 7.764e-01 9.519e-01 NA
+AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.020 6.763e-02 2.379e-01 1.112e-04 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
+AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.379e-01 1.112e-04 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
+AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.379e-01 1.112e-04 1.982e+00 1.680e+00 6.806e-01 9.106e-01 8.928e-01 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.015 6.823e-01 7.220e-01 4.935e-04 4.318e-01 1.214e+00 4.796e-01 7.715e-01 9.468e-01 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.015 6.823e-01 7.220e-01 4.935e-04 4.318e-01 1.214e+00 4.796e-01 7.715e-01 9.468e-01 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.020 8.391e-01 9.382e-01 9.382e-01 -8.000e-02 1.031e+00 5.114e-01 7.913e-01 9.217e-01 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTATATATA 0.020 8.391e-01 9.382e-01 9.382e-01 -8.000e-02 1.031e+00 5.114e-01 7.913e-01 9.217e-01 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTATATAT 0.020 8.391e-01 9.382e-01 9.382e-01 -8.000e-02 1.031e+00 5.114e-01 7.913e-01 9.217e-01 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTATATA 0.020 8.391e-01 9.382e-01 9.382e-01 -8.000e-02 1.031e+00 5.114e-01 7.913e-01 9.217e-01 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTATA 0.025 4.947e-01 5.480e-01 5.434e-01 -5.599e-01 9.318e-01 5.328e-01 8.223e-01 9.241e-01 bfgs-fail
+AAAAAAAAAAAAGCATTTTACTATTTTGTATATATATAT 0.010 8.864e-01 8.680e-01 6.554e-04 -2.372e-01 1.428e+00 5.119e-01 7.799e-01 9.218e-01 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTGTATATATATA 0.010 8.864e-01 8.680e-01 6.554e-04 -2.372e-01 1.428e+00 5.119e-01 7.799e-01 9.218e-01 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTGTATATATAT 0.010 8.864e-01 8.680e-01 6.554e-04 -2.372e-01 1.428e+00 5.119e-01 7.799e-01 9.218e-01 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTGTATATATA 0.010 8.864e-01 8.680e-01 6.554e-04 -2.372e-01 1.428e+00 5.119e-01 7.799e-01 9.218e-01 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTGTATAT 0.010 8.864e-01 8.680e-01 6.554e-04 -2.372e-01 1.428e+00 5.119e-01 7.799e-01 9.218e-01 bad-chisq
+AAAAAAAAAAAAGCATTTTACTATTTTG 0.010 8.864e-01 8.680e-01 6.554e-04 -2.372e-01 1.428e+00 5.119e-01 7.799e-01 9.218e-01 bad-chisq
+AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTAA 0.115 2.951e-01 3.039e-01 2.964e-01 4.807e-01 4.676e-01 4.956e-01 8.475e-01 8.782e-01 bfgs-fail
+AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.115 2.951e-01 3.039e-01 2.964e-01 4.807e-01 4.676e-01 4.956e-01 8.475e-01 8.782e-01 bfgs-fail
+AAAAAAAAAAAAGTGTTAAAATAAA 0.120 2.207e-01 2.352e-01 2.262e-01 5.497e-01 4.631e-01 5.104e-01 8.738e-01 8.892e-01 bfgs-fail
+AAAAAAAAAAAAGTGTTAAAA 0.120 2.207e-01 2.352e-01 2.262e-01 5.497e-01 4.631e-01 5.104e-01 8.738e-01 8.892e-01 bfgs-fail
+AAAAAAAAAAAAGTG 0.120 2.207e-01 2.352e-01 2.262e-01 5.497e-01 4.631e-01 5.104e-01 8.738e-01 8.892e-01 bfgs-fail
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGAG 0.050 2.246e-02 5.397e-02 1.393e-05 1.801e+00 9.344e-01 3.593e-01 6.842e-01 9.787e-01 bad-chisq
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.050 2.246e-02 5.397e-02 1.393e-05 1.801e+00 9.344e-01 3.593e-01 6.842e-01 9.787e-01 bad-chisq
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.050 2.246e-02 5.397e-02 1.393e-05 1.801e+00 9.344e-01 3.593e-01 6.842e-01 9.787e-01 bad-chisq
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.055 1.379e-02 3.811e-02 7.555e-06 1.919e+00 9.255e-01 3.542e-01 6.309e-01 9.801e-01 bad-chisq
+AAAAAAAAAAAAGTTCAAAATGCA 0.055 1.379e-02 3.811e-02 7.555e-06 1.919e+00 9.255e-01 3.542e-01 6.309e-01 9.801e-01 bad-chisq
+AAAAAAAAAAAAGTTCAAAATG 0.055 1.379e-02 3.811e-02 7.555e-06 1.919e+00 9.255e-01 3.542e-01 6.309e-01 9.801e-01 bad-chisq
+AAAAAAAAAAAAGTTCAAAAT 0.055 1.379e-02 3.811e-02 7.555e-06 1.919e+00 9.255e-01 3.542e-01 6.309e-01 9.801e-01 bad-chisq
+AAAAAAAAAAAAGTT 0.060 4.186e-02 4.602e-02 2.268e-02 1.589e+00 7.966e-01 3.347e-01 6.554e-01 9.229e-01 bfgs-fail
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.290 3.637e-01 3.917e-01 3.918e-01 -2.700e-01 3.152e-01 5.267e-01 8.373e-01 9.031e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.295 4.451e-01 4.785e-01 4.787e-01 -2.223e-01 3.136e-01 5.263e-01 8.204e-01 8.992e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.295 4.451e-01 4.785e-01 4.787e-01 -2.223e-01 3.136e-01 5.263e-01 8.204e-01 8.992e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGT 0.295 4.451e-01 4.785e-01 4.787e-01 -2.223e-01 3.136e-01 5.263e-01 8.204e-01 8.992e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.295 4.451e-01 4.785e-01 4.787e-01 -2.223e-01 3.136e-01 5.263e-01 8.204e-01 8.992e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.295 4.451e-01 4.785e-01 4.787e-01 -2.223e-01 3.136e-01 5.263e-01 8.204e-01 8.992e-01 NA
+AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.025 2.551e-01 4.089e-01 2.551e-04 8.642e-01 1.047e+00 5.698e-01 8.546e-01 9.904e-01 bad-chisq
+AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.025 2.551e-01 4.089e-01 2.551e-04 8.642e-01 1.047e+00 5.698e-01 8.546e-01 9.904e-01 bad-chisq
+AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.025 2.551e-01 4.089e-01 2.551e-04 8.642e-01 1.047e+00 5.698e-01 8.546e-01 9.904e-01 bad-chisq
+AAAAAAAAAAAGAAAGATAGTTTAACCTATGAAAAAATCACTAAAAATTTTTGCTACATCTAAATAGTTTGACCTCTTCGGGGTTGCTTTGGTCGTTGGG 0.060 1.197e-01 1.306e-01 1.184e-01 -9.544e-01 6.313e-01 4.785e-01 8.458e-01 9.541e-01 bfgs-fail
+AAAAAAAAAAAGAAAG 0.060 1.197e-01 1.306e-01 1.184e-01 -9.544e-01 6.313e-01 4.785e-01 8.458e-01 9.541e-01 bfgs-fail
+AAAAAAAAAAAGAAA 0.085 6.398e-03 1.157e-02 5.965e-03 -1.493e+00 5.915e-01 5.221e-01 8.265e-01 9.654e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATAT 0.010 1.986e-01 4.818e-01 4.128e-04 1.350e+00 1.919e+00 5.863e-01 9.079e-01 9.551e-01 bad-chisq
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATCATAAGATAAGTTTTTTATAAAGACACGCAAATGAGTATAAATCAGCTAATTTT 0.010 1.986e-01 4.772e-01 4.028e-04 1.357e+00 1.909e+00 5.991e-01 7.892e-01 9.846e-01 bad-chisq
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATAT 0.035 9.076e-01 9.512e-01 9.511e-01 4.828e-02 7.884e-01 5.038e-01 7.870e-01 9.317e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATA 0.035 9.076e-01 9.512e-01 9.511e-01 4.828e-02 7.884e-01 5.038e-01 7.870e-01 9.317e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATAT 0.045 4.716e-01 4.706e-01 4.611e-01 5.278e-01 7.315e-01 5.102e-01 7.677e-01 9.929e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATA 0.045 4.716e-01 4.706e-01 4.611e-01 5.278e-01 7.315e-01 5.102e-01 7.677e-01 9.929e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATAT 0.060 4.021e-01 3.758e-01 3.653e-01 5.683e-01 6.417e-01 4.826e-01 7.479e-01 9.837e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATA 0.060 4.021e-01 3.758e-01 3.653e-01 5.683e-01 6.417e-01 4.826e-01 7.479e-01 9.837e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATAT 0.080 2.491e-01 2.257e-01 2.123e-01 6.864e-01 5.666e-01 4.363e-01 7.834e-01 9.647e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATA 0.080 2.491e-01 2.257e-01 2.123e-01 6.864e-01 5.666e-01 4.363e-01 7.834e-01 9.647e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATAT 0.095 8.528e-02 7.112e-02 5.745e-02 9.990e-01 5.535e-01 3.602e-01 7.502e-01 8.892e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATA 0.100 1.552e-01 1.338e-01 1.208e-01 7.780e-01 5.188e-01 4.012e-01 7.586e-01 9.488e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATTATAAGATAAGTTTTTTATAAAGACACGCAAATGAGTATAAATCAGCTAATTTTTGGTTTA 0.015 5.368e-02 2.295e-01 1.138e-04 -2.108e+00 1.755e+00 6.532e-01 8.589e-01 8.506e-01 bad-chisq
+AAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.115 5.475e-01 4.655e-01 4.619e-01 3.394e-01 4.650e-01 4.382e-01 7.633e-01 9.943e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.115 5.475e-01 4.655e-01 4.619e-01 3.394e-01 4.650e-01 4.382e-01 7.633e-01 9.943e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.120 7.264e-01 6.197e-01 6.183e-01 2.258e-01 4.550e-01 4.539e-01 7.635e-01 9.715e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATATA 0.120 7.264e-01 6.197e-01 6.183e-01 2.258e-01 4.550e-01 4.539e-01 7.635e-01 9.715e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATAT 0.120 7.264e-01 6.197e-01 6.183e-01 2.258e-01 4.550e-01 4.539e-01 7.635e-01 9.715e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATATA 0.120 7.264e-01 6.197e-01 6.183e-01 2.258e-01 4.550e-01 4.539e-01 7.635e-01 9.715e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATAT 0.120 7.264e-01 6.197e-01 6.183e-01 2.258e-01 4.550e-01 4.539e-01 7.635e-01 9.715e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTATA 0.125 9.144e-01 8.209e-01 8.206e-01 9.981e-02 4.408e-01 4.836e-01 7.758e-01 9.423e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTA 0.125 9.144e-01 8.209e-01 8.206e-01 9.981e-02 4.408e-01 4.836e-01 7.758e-01 9.423e-01 bfgs-fail
+AAAAAAAAAAAGCATTTTACTATTTTGTATATATATATATATAT 0.055 6.589e-02 9.701e-02 6.444e-02 1.330e+00 8.013e-01 6.909e-01 7.888e-01 9.626e-01 bfgs-fail
diff --git a/test/test7.o.txt b/test/test7.o.txt
index dd9f19d..bef1d35 100644
--- a/test/test7.o.txt
+++ b/test/test7.o.txt
@@ -1,153 +1,153 @@
-AAAAAAAAAAAAAAAAAAAT 0.055 1.379e-02 4.776e-02 1.819e+00 9.189e-01 9.666e-01 bad-chisq
-AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAA 0.080 6.443e-03 1.346e-02 1.919e+00 7.764e-01 7.761e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.080 6.443e-03 1.346e-02 1.919e+00 7.764e-01 7.761e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.080 6.443e-03 1.346e-02 1.919e+00 7.764e-01 7.761e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTATCTT 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTATCT 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATATTTAT 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCATAT 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCAT 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATGCA 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAATG 0.085 3.982e-03 9.981e-03 1.989e+00 7.721e-01 8.177e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAAT 0.100 1.784e-02 2.142e-02 1.343e+00 5.840e-01 8.779e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAG 0.100 1.784e-02 2.303e-02 1.325e+00 5.830e-01 8.409e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.100 1.784e-02 2.303e-02 1.325e+00 5.830e-01 8.409e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.100 1.784e-02 2.303e-02 1.325e+00 5.830e-01 8.409e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.115 4.668e-03 7.813e-03 1.524e+00 5.730e-01 8.570e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.115 4.668e-03 7.813e-03 1.524e+00 5.730e-01 8.570e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCTT 0.120 2.937e-03 5.542e-03 1.581e+00 5.700e-01 8.947e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTATCT 0.120 2.937e-03 5.542e-03 1.581e+00 5.700e-01 8.947e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATATTTAT 0.130 4.631e-03 7.210e-03 1.401e+00 5.215e-01 9.925e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCATAT 0.130 4.631e-03 7.210e-03 1.401e+00 5.215e-01 9.925e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCAT 0.130 4.631e-03 7.210e-03 1.401e+00 5.215e-01 9.925e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATGCA 0.130 4.631e-03 7.210e-03 1.401e+00 5.215e-01 9.925e-01 bfgs-fail
-AAAAAAAAAAAAAAAAATG 0.130 4.631e-03 7.210e-03 1.401e+00 5.215e-01 9.925e-01 bfgs-fail
-AAAAAAAAAAAAAAAAAT 0.145 1.460e-02 1.692e-02 1.103e+00 4.617e-01 9.926e-01 bfgs-fail
-AAAAAAAAAAAAAAAAA 0.175 3.743e-03 5.035e-03 1.214e+00 4.329e-01 8.861e-01 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGT 0.140 2.869e-01 2.909e-01 4.492e-01 4.253e-01 9.716e-01 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.140 2.869e-01 2.909e-01 4.492e-01 4.253e-01 9.716e-01 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.140 2.869e-01 2.909e-01 4.492e-01 4.253e-01 9.716e-01 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.140 2.869e-01 2.909e-01 4.492e-01 4.253e-01 9.716e-01 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.155 1.208e-01 1.251e-01 6.365e-01 4.150e-01 9.691e-01 bfgs-fail
-AAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.185 3.320e-01 3.402e-01 3.586e-01 3.760e-01 9.872e-01 NA
-AAAAAAAAAAAAAAAATGCATATTTATCTT 0.190 2.614e-01 2.693e-01 4.125e-01 3.734e-01 9.826e-01 NA
-AAAAAAAAAAAAAAAATGCATATTTATCT 0.190 2.614e-01 2.693e-01 4.125e-01 3.734e-01 9.826e-01 NA
-AAAAAAAAAAAAAAAATGCATATTTAT 0.200 2.864e-01 2.939e-01 3.832e-01 3.650e-01 9.528e-01 NA
-AAAAAAAAAAAAAAAATGCATAT 0.200 2.864e-01 2.939e-01 3.832e-01 3.650e-01 9.528e-01 NA
-AAAAAAAAAAAAAAAATGCAT 0.200 2.864e-01 2.939e-01 3.832e-01 3.650e-01 9.528e-01 NA
-AAAAAAAAAAAAAAAATGCA 0.200 2.864e-01 2.939e-01 3.832e-01 3.650e-01 9.528e-01 NA
-AAAAAAAAAAAAAAAATG 0.200 2.864e-01 2.939e-01 3.832e-01 3.650e-01 9.528e-01 NA
-AAAAAAAAAAAAAAAAT 0.215 4.162e-01 4.195e-01 2.846e-01 3.526e-01 9.457e-01 NA
-AAAAAAAAAAAAAAAA 0.250 1.396e-01 1.407e-01 4.992e-01 3.389e-01 9.113e-01 NA
-AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGC 0.065 1.003e-01 1.073e-01 1.090e+00 6.767e-01 8.882e-01 bfgs-fail
-AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.065 1.003e-01 1.073e-01 1.090e+00 6.767e-01 8.882e-01 bfgs-fail
-AAAAAAAAAAAAAAAGTGTTAAAATAAA 0.070 6.602e-02 7.803e-02 1.179e+00 6.691e-01 9.195e-01 bfgs-fail
-AAAAAAAAAAAAAAAGTGTTAAAA 0.070 6.602e-02 7.803e-02 1.179e+00 6.691e-01 9.195e-01 bfgs-fail
-AAAAAAAAAAAAAAAGT 0.075 4.301e-02 5.301e-02 1.284e+00 6.636e-01 9.185e-01 bfgs-fail
-AAAAAAAAAAAAAAAG 0.090 4.172e-02 5.147e-02 1.143e+00 5.868e-01 9.206e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.185 1.815e-01 1.739e-01 5.194e-01 3.819e-01 9.507e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.185 1.815e-01 1.739e-01 5.194e-01 3.819e-01 9.507e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.185 1.815e-01 1.739e-01 5.194e-01 3.819e-01 9.507e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.185 1.815e-01 1.739e-01 5.194e-01 3.819e-01 9.507e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.190 1.374e-01 1.356e-01 5.656e-01 3.790e-01 9.580e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.190 1.374e-01 1.356e-01 5.656e-01 3.790e-01 9.580e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.190 1.374e-01 1.356e-01 5.656e-01 3.790e-01 9.580e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.190 1.374e-01 1.356e-01 5.656e-01 3.790e-01 9.580e-01 bfgs-fail
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.210 8.728e-02 8.829e-02 6.240e-01 3.661e-01 9.464e-01 NA
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 8.928e-01 bad-chisq
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 8.928e-01 bad-chisq
-AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 8.928e-01 bad-chisq
-AAAAAAAAAAAAAAA 0.385 1.865e-03 2.396e-03 9.314e-01 3.068e-01 9.386e-01 NA
-AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCT 0.105 2.560e-01 2.732e-01 5.374e-01 4.905e-01 8.727e-01 bfgs-fail
-AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.105 2.560e-01 2.732e-01 5.374e-01 4.905e-01 8.727e-01 bfgs-fail
-AAAAAAAAAAAAAAGTGTTAAAATAAA 0.110 1.877e-01 2.085e-01 6.109e-01 4.857e-01 8.852e-01 bfgs-fail
-AAAAAAAAAAAAAAGTGTTAAAA 0.110 1.877e-01 2.085e-01 6.109e-01 4.857e-01 8.852e-01 bfgs-fail
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATG 0.040 5.932e-02 1.118e-01 1.526e+00 9.600e-01 9.276e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.040 5.932e-02 1.118e-01 1.526e+00 9.600e-01 9.276e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.040 5.932e-02 1.118e-01 1.526e+00 9.600e-01 9.276e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.045 3.651e-02 7.759e-02 1.669e+00 9.458e-01 9.276e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAATG 0.045 3.651e-02 7.759e-02 1.669e+00 9.458e-01 9.276e-01 bad-chisq
-AAAAAAAAAAAAAAGTTCAAAAT 0.045 3.651e-02 7.759e-02 1.669e+00 9.458e-01 9.276e-01 bad-chisq
-AAAAAAAAAAAAAAGT 0.165 8.715e-03 1.143e-02 1.102e+00 4.358e-01 8.222e-01 bfgs-fail
-AAAAAAAAAAAAAAG 0.185 1.493e-02 1.838e-02 9.497e-01 4.028e-01 8.662e-01 NA
-AAAAAAAAAAAAAATGCATATTTATATTAGCAAAA 0.125 1.834e-03 4.234e-03 1.621e+00 5.666e-01 8.786e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATATTAG 0.125 1.834e-03 4.234e-03 1.621e+00 5.666e-01 8.786e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATATTA 0.130 1.137e-03 2.841e-03 1.687e+00 5.654e-01 8.269e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.205 3.884e-01 3.532e-01 3.367e-01 3.626e-01 9.819e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.205 3.884e-01 3.532e-01 3.367e-01 3.626e-01 9.819e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.205 3.884e-01 3.532e-01 3.367e-01 3.626e-01 9.819e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.205 3.884e-01 3.532e-01 3.367e-01 3.626e-01 9.819e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.210 3.115e-01 2.878e-01 3.821e-01 3.594e-01 9.820e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.210 3.115e-01 2.878e-01 3.821e-01 3.594e-01 9.820e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.210 3.115e-01 2.878e-01 3.821e-01 3.594e-01 9.820e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.210 3.115e-01 2.878e-01 3.821e-01 3.594e-01 9.820e-01 bfgs-fail
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.230 2.114e-01 1.970e-01 4.501e-01 3.489e-01 9.659e-01 NA
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 8.928e-01 bad-chisq
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 8.928e-01 bad-chisq
-AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 8.928e-01 bad-chisq
-AAAAAAAAAAAAAATGCA 0.410 1.633e-03 1.796e-03 9.467e-01 3.032e-01 8.097e-01 NA
-AAAAAAAAAAAAAAT 0.450 6.645e-03 6.730e-03 8.011e-01 2.956e-01 8.226e-01 NA
-AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTA 0.115 2.951e-01 3.039e-01 4.807e-01 4.676e-01 8.782e-01 bfgs-fail
-AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.115 2.951e-01 3.039e-01 4.807e-01 4.676e-01 8.782e-01 bfgs-fail
-AAAAAAAAAAAAAGTGTTAAAATAAA 0.120 2.207e-01 2.352e-01 5.497e-01 4.631e-01 8.892e-01 bfgs-fail
-AAAAAAAAAAAAAGTGTTAAAA 0.120 2.207e-01 2.352e-01 5.497e-01 4.631e-01 8.892e-01 bfgs-fail
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGA 0.045 3.651e-02 7.286e-02 1.702e+00 9.489e-01 9.279e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.045 3.651e-02 7.286e-02 1.702e+00 9.489e-01 9.279e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.045 3.651e-02 7.286e-02 1.702e+00 9.489e-01 9.279e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.050 2.246e-02 5.079e-02 1.832e+00 9.377e-01 9.280e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAATG 0.050 2.246e-02 5.079e-02 1.832e+00 9.377e-01 9.280e-01 bad-chisq
-AAAAAAAAAAAAAGTTCAAAAT 0.050 2.246e-02 5.079e-02 1.832e+00 9.377e-01 9.280e-01 bad-chisq
-AAAAAAAAAAAAAGTT 0.055 6.589e-02 6.390e-02 1.493e+00 8.058e-01 8.821e-01 bfgs-fail
-AAAAAAAAAAAAAGT 0.195 6.759e-03 7.875e-03 1.065e+00 4.007e-01 8.237e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.245 9.868e-01 9.328e-01 2.821e-02 3.343e-01 9.308e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.245 9.868e-01 9.328e-01 2.821e-02 3.343e-01 9.308e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.245 9.868e-01 9.328e-01 2.821e-02 3.343e-01 9.308e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.245 9.868e-01 9.328e-01 2.821e-02 3.343e-01 9.308e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.250 8.696e-01 8.247e-01 7.344e-02 3.316e-01 9.380e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.250 8.696e-01 8.247e-01 7.344e-02 3.316e-01 9.380e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.250 8.696e-01 8.247e-01 7.344e-02 3.316e-01 9.380e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.250 8.696e-01 8.247e-01 7.344e-02 3.316e-01 9.380e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.270 6.773e-01 6.411e-01 1.511e-01 3.241e-01 9.519e-01 NA
-AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 8.928e-01 bad-chisq
-AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 8.928e-01 bad-chisq
-AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.379e-01 1.982e+00 1.680e+00 8.928e-01 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.015 6.823e-01 7.220e-01 4.318e-01 1.214e+00 9.468e-01 bad-chisq
-AAAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.015 6.823e-01 7.220e-01 4.318e-01 1.214e+00 9.468e-01 bad-chisq
-AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTAA 0.115 2.951e-01 3.039e-01 4.807e-01 4.676e-01 8.782e-01 bfgs-fail
-AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.115 2.951e-01 3.039e-01 4.807e-01 4.676e-01 8.782e-01 bfgs-fail
-AAAAAAAAAAAAGTGTTAAAATAAA 0.120 2.207e-01 2.352e-01 5.497e-01 4.631e-01 8.892e-01 bfgs-fail
-AAAAAAAAAAAAGTGTTAAAA 0.120 2.207e-01 2.352e-01 5.497e-01 4.631e-01 8.892e-01 bfgs-fail
-AAAAAAAAAAAAGTG 0.120 2.207e-01 2.352e-01 5.497e-01 4.631e-01 8.892e-01 bfgs-fail
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGAG 0.050 2.246e-02 5.397e-02 1.801e+00 9.344e-01 9.787e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.050 2.246e-02 5.397e-02 1.801e+00 9.344e-01 9.787e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.050 2.246e-02 5.397e-02 1.801e+00 9.344e-01 9.787e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.055 1.379e-02 3.811e-02 1.919e+00 9.255e-01 9.801e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATGCA 0.055 1.379e-02 3.811e-02 1.919e+00 9.255e-01 9.801e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAATG 0.055 1.379e-02 3.811e-02 1.919e+00 9.255e-01 9.801e-01 bad-chisq
-AAAAAAAAAAAAGTTCAAAAT 0.055 1.379e-02 3.811e-02 1.919e+00 9.255e-01 9.801e-01 bad-chisq
-AAAAAAAAAAAAGTT 0.060 4.186e-02 4.602e-02 1.589e+00 7.966e-01 9.229e-01 bfgs-fail
-AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.025 2.551e-01 4.089e-01 8.642e-01 1.047e+00 9.904e-01 bad-chisq
-AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.025 2.551e-01 4.089e-01 8.642e-01 1.047e+00 9.904e-01 bad-chisq
-AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.025 2.551e-01 4.089e-01 8.642e-01 1.047e+00 9.904e-01 bad-chisq
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATAT 0.010 1.986e-01 4.818e-01 1.350e+00 1.919e+00 9.551e-01 bad-chisq
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATCATAAGATAAGTTTTTTATAAAGACACGCAAATGAGTATAAATCAGCTAATTTT 0.010 1.986e-01 4.772e-01 1.357e+00 1.909e+00 9.846e-01 bad-chisq
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATAT 0.035 9.076e-01 9.512e-01 4.828e-02 7.884e-01 9.317e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATA 0.035 9.076e-01 9.512e-01 4.828e-02 7.884e-01 9.317e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATAT 0.045 4.716e-01 4.706e-01 5.278e-01 7.315e-01 9.929e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATA 0.045 4.716e-01 4.706e-01 5.278e-01 7.315e-01 9.929e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATAT 0.060 4.021e-01 3.758e-01 5.683e-01 6.417e-01 9.837e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATA 0.060 4.021e-01 3.758e-01 5.683e-01 6.417e-01 9.837e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATAT 0.080 2.491e-01 2.257e-01 6.864e-01 5.666e-01 9.647e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATATA 0.080 2.491e-01 2.257e-01 6.864e-01 5.666e-01 9.647e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATAT 0.095 8.528e-02 7.112e-02 9.990e-01 5.535e-01 8.892e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATATA 0.100 1.552e-01 1.338e-01 7.780e-01 5.188e-01 9.488e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.115 5.475e-01 4.655e-01 3.394e-01 4.650e-01 9.943e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.115 5.475e-01 4.655e-01 3.394e-01 4.650e-01 9.943e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.120 7.264e-01 6.197e-01 2.258e-01 4.550e-01 9.715e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATATA 0.120 7.264e-01 6.197e-01 2.258e-01 4.550e-01 9.715e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATAT 0.120 7.264e-01 6.197e-01 2.258e-01 4.550e-01 9.715e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATATA 0.120 7.264e-01 6.197e-01 2.258e-01 4.550e-01 9.715e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATAT 0.120 7.264e-01 6.197e-01 2.258e-01 4.550e-01 9.715e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTATA 0.125 9.144e-01 8.209e-01 9.981e-02 4.408e-01 9.423e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTA 0.125 9.144e-01 8.209e-01 9.981e-02 4.408e-01 9.423e-01 bfgs-fail
-AAAAAAAAAAAGCATTTTACTATTTTGTATATATATATATATAT 0.055 6.589e-02 9.701e-02 1.330e+00 8.013e-01 9.626e-01 bfgs-fail
+AAAAAAAAAAAAAAAAAAAT 0.055 1.379e-02 4.747e-02 8.661e-04 1.830e+00 9.233e-01
+AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAA 0.080 6.443e-03 1.580e-02 3.613e-03 1.859e+00 7.702e-01
+AAAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.080 6.443e-03 1.580e-02 3.613e-03 1.859e+00 7.702e-01
+AAAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.080 6.443e-03 1.580e-02 3.613e-03 1.859e+00 7.702e-01
+AAAAAAAAAAAAAAAAAATGCATATTTATCTT 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01
+AAAAAAAAAAAAAAAAAATGCATATTTATCT 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01
+AAAAAAAAAAAAAAAAAATGCATATTTAT 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01
+AAAAAAAAAAAAAAAAAATGCATAT 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01
+AAAAAAAAAAAAAAAAAATGCAT 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01
+AAAAAAAAAAAAAAAAAATGCA 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01
+AAAAAAAAAAAAAAAAAATG 0.085 3.982e-03 1.152e-02 2.037e-03 1.938e+00 7.672e-01
+AAAAAAAAAAAAAAAAAAT 0.100 1.784e-02 2.494e-02 1.381e-02 1.297e+00 5.786e-01
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAG 0.100 1.784e-02 2.494e-02 1.381e-02 1.297e+00 5.786e-01
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.100 1.784e-02 2.494e-02 1.381e-02 1.297e+00 5.786e-01
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.100 1.784e-02 2.494e-02 1.381e-02 1.297e+00 5.786e-01
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.115 4.668e-03 8.463e-03 3.064e-03 1.502e+00 5.703e-01
+AAAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.115 4.668e-03 8.463e-03 3.064e-03 1.502e+00 5.703e-01
+AAAAAAAAAAAAAAAAATGCATATTTATCTT 0.120 2.937e-03 5.905e-03 1.811e-03 1.564e+00 5.681e-01
+AAAAAAAAAAAAAAAAATGCATATTTATCT 0.120 2.937e-03 5.905e-03 1.811e-03 1.564e+00 5.681e-01
+AAAAAAAAAAAAAAAAATGCATATTTAT 0.130 4.631e-03 7.579e-03 3.225e-03 1.389e+00 5.202e-01
+AAAAAAAAAAAAAAAAATGCATAT 0.130 4.631e-03 7.579e-03 3.225e-03 1.389e+00 5.202e-01
+AAAAAAAAAAAAAAAAATGCAT 0.130 4.631e-03 7.579e-03 3.225e-03 1.389e+00 5.202e-01
+AAAAAAAAAAAAAAAAATGCA 0.130 4.631e-03 7.579e-03 3.225e-03 1.389e+00 5.202e-01
+AAAAAAAAAAAAAAAAATG 0.130 4.631e-03 7.579e-03 3.225e-03 1.389e+00 5.202e-01
+AAAAAAAAAAAAAAAAAT 0.145 1.460e-02 1.820e-02 1.214e-02 1.087e+00 4.601e-01
+AAAAAAAAAAAAAAAAA 0.175 3.743e-03 5.267e-03 2.860e-03 1.204e+00 4.316e-01
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGT 0.140 2.869e-01 2.895e-01 2.830e-01 4.480e-01 4.230e-01
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.140 2.869e-01 2.895e-01 2.830e-01 4.480e-01 4.230e-01
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.140 2.869e-01 2.895e-01 2.830e-01 4.480e-01 4.230e-01
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.140 2.869e-01 2.895e-01 2.830e-01 4.480e-01 4.230e-01
+AAAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.155 1.208e-01 1.248e-01 1.164e-01 6.353e-01 4.140e-01
+AAAAAAAAAAAAAAAATGCATATTTATCTTAG 0.185 3.320e-01 3.335e-01 3.295e-01 3.613e-01 3.736e-01
+AAAAAAAAAAAAAAAATGCATATTTATCTT 0.190 2.614e-01 2.633e-01 2.584e-01 4.154e-01 3.713e-01
+AAAAAAAAAAAAAAAATGCATATTTATCT 0.190 2.614e-01 2.633e-01 2.584e-01 4.154e-01 3.713e-01
+AAAAAAAAAAAAAAAATGCATATTTAT 0.200 2.864e-01 2.880e-01 2.838e-01 3.857e-01 3.630e-01
+AAAAAAAAAAAAAAAATGCATAT 0.200 2.864e-01 2.880e-01 2.838e-01 3.857e-01 3.630e-01
+AAAAAAAAAAAAAAAATGCAT 0.200 2.864e-01 2.880e-01 2.838e-01 3.857e-01 3.630e-01
+AAAAAAAAAAAAAAAATGCA 0.200 2.864e-01 2.880e-01 2.838e-01 3.857e-01 3.630e-01
+AAAAAAAAAAAAAAAATG 0.200 2.864e-01 2.880e-01 2.838e-01 3.857e-01 3.630e-01
+AAAAAAAAAAAAAAAAT 0.215 4.162e-01 4.170e-01 4.146e-01 2.845e-01 3.506e-01
+AAAAAAAAAAAAAAAA 0.250 1.396e-01 1.415e-01 1.372e-01 4.953e-01 3.369e-01
+AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGC 0.065 1.003e-01 1.144e-01 8.982e-02 1.065e+00 6.744e-01
+AAAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.065 1.003e-01 1.144e-01 8.982e-02 1.065e+00 6.744e-01
+AAAAAAAAAAAAAAAGTGTTAAAATAAA 0.070 6.602e-02 7.971e-02 5.670e-02 1.170e+00 6.677e-01
+AAAAAAAAAAAAAAAGTGTTAAAA 0.070 6.602e-02 7.971e-02 5.670e-02 1.170e+00 6.677e-01
+AAAAAAAAAAAAAAAGT 0.075 4.301e-02 5.562e-02 3.524e-02 1.267e+00 6.621e-01
+AAAAAAAAAAAAAAAG 0.090 4.172e-02 5.119e-02 3.531e-02 1.143e+00 5.861e-01
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.185 1.815e-01 1.842e-01 1.780e-01 5.026e-01 3.784e-01
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.185 1.815e-01 1.842e-01 1.780e-01 5.026e-01 3.784e-01
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.185 1.815e-01 1.842e-01 1.780e-01 5.026e-01 3.784e-01
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.185 1.815e-01 1.842e-01 1.780e-01 5.026e-01 3.784e-01
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.190 1.374e-01 1.403e-01 1.339e-01 5.551e-01 3.764e-01
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.190 1.374e-01 1.403e-01 1.339e-01 5.551e-01 3.764e-01
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.190 1.374e-01 1.403e-01 1.339e-01 5.551e-01 3.764e-01
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.190 1.374e-01 1.403e-01 1.339e-01 5.551e-01 3.764e-01
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.210 8.728e-02 8.998e-02 8.421e-02 6.172e-01 3.640e-01
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTC 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00
+AAAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00
+AAAAAAAAAAAAAAA 0.385 1.865e-03 2.107e-03 1.697e-03 9.388e-01 3.053e-01
+AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCT 0.105 2.560e-01 2.604e-01 2.506e-01 5.476e-01 4.866e-01
+AAAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.105 2.560e-01 2.604e-01 2.506e-01 5.476e-01 4.866e-01
+AAAAAAAAAAAAAAGTGTTAAAATAAA 0.110 1.877e-01 1.930e-01 1.818e-01 6.271e-01 4.818e-01
+AAAAAAAAAAAAAAGTGTTAAAA 0.110 1.877e-01 1.930e-01 1.818e-01 6.271e-01 4.818e-01
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATG 0.040 5.932e-02 1.271e-01 4.825e-03 1.464e+00 9.597e-01
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.040 5.932e-02 1.271e-01 4.825e-03 1.464e+00 9.597e-01
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.040 5.932e-02 1.271e-01 4.825e-03 1.464e+00 9.597e-01
+AAAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.045 3.651e-02 9.054e-02 2.755e-03 1.599e+00 9.447e-01
+AAAAAAAAAAAAAAGTTCAAAATG 0.045 3.651e-02 9.054e-02 2.755e-03 1.599e+00 9.447e-01
+AAAAAAAAAAAAAAGTTCAAAAT 0.045 3.651e-02 9.054e-02 2.755e-03 1.599e+00 9.447e-01
+AAAAAAAAAAAAAAGT 0.165 8.715e-03 1.113e-02 7.115e-03 1.104e+00 4.347e-01
+AAAAAAAAAAAAAAG 0.185 1.493e-02 1.734e-02 1.304e-02 9.564e-01 4.020e-01
+AAAAAAAAAAAAAATGCATATTTATATTAGCAAAA 0.125 1.834e-03 4.123e-03 1.059e-03 1.624e+00 5.661e-01
+AAAAAAAAAAAAAATGCATATTTATATTAG 0.125 1.834e-03 4.123e-03 1.059e-03 1.624e+00 5.661e-01
+AAAAAAAAAAAAAATGCATATTTATATTA 0.130 1.137e-03 2.881e-03 6.122e-04 1.682e+00 5.643e-01
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.205 3.884e-01 3.894e-01 3.865e-01 3.077e-01 3.575e-01
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.205 3.884e-01 3.894e-01 3.865e-01 3.077e-01 3.575e-01
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.205 3.884e-01 3.894e-01 3.865e-01 3.077e-01 3.575e-01
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.205 3.884e-01 3.894e-01 3.865e-01 3.077e-01 3.575e-01
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.210 3.115e-01 3.129e-01 3.092e-01 3.588e-01 3.555e-01
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.210 3.115e-01 3.129e-01 3.092e-01 3.588e-01 3.555e-01
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.210 3.115e-01 3.129e-01 3.092e-01 3.588e-01 3.555e-01
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.210 3.115e-01 3.129e-01 3.092e-01 3.588e-01 3.555e-01
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.230 2.114e-01 2.132e-01 2.089e-01 4.301e-01 3.455e-01
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCC 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00
+AAAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00
+AAAAAAAAAAAAAATGCA 0.410 1.633e-03 1.834e-03 1.499e-03 9.372e-01 3.008e-01
+AAAAAAAAAAAAAAT 0.450 6.645e-03 7.038e-03 6.392e-03 7.893e-01 2.929e-01
+AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTA 0.115 2.951e-01 2.984e-01 2.906e-01 4.815e-01 4.630e-01
+AAAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.115 2.951e-01 2.984e-01 2.906e-01 4.815e-01 4.630e-01
+AAAAAAAAAAAAAGTGTTAAAATAAA 0.120 2.207e-01 2.249e-01 2.155e-01 5.566e-01 4.586e-01
+AAAAAAAAAAAAAGTGTTAAAA 0.120 2.207e-01 2.249e-01 2.155e-01 5.566e-01 4.586e-01
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGA 0.045 3.651e-02 9.054e-02 2.755e-03 1.599e+00 9.447e-01
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.045 3.651e-02 9.054e-02 2.755e-03 1.599e+00 9.447e-01
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.045 3.651e-02 9.054e-02 2.755e-03 1.599e+00 9.447e-01
+AAAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.050 2.246e-02 6.522e-02 1.553e-03 1.720e+00 9.329e-01
+AAAAAAAAAAAAAGTTCAAAATG 0.050 2.246e-02 6.522e-02 1.553e-03 1.720e+00 9.329e-01
+AAAAAAAAAAAAAGTTCAAAAT 0.050 2.246e-02 6.522e-02 1.553e-03 1.720e+00 9.329e-01
+AAAAAAAAAAAAAGTT 0.055 6.589e-02 8.577e-02 5.410e-02 1.366e+00 7.952e-01
+AAAAAAAAAAAAAGT 0.195 6.759e-03 8.383e-03 5.629e-03 1.052e+00 3.992e-01
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.245 9.868e-01 9.868e-01 9.868e-01 5.461e-03 3.305e-01
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATC 0.245 9.868e-01 9.868e-01 9.868e-01 5.461e-03 3.305e-01
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTTTTTG 0.245 9.868e-01 9.868e-01 9.868e-01 5.461e-03 3.305e-01
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGACGATTTAAATCGTCGTTTT 0.245 9.868e-01 9.868e-01 9.868e-01 5.461e-03 3.305e-01
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGAC 0.250 8.696e-01 8.696e-01 8.696e-01 5.395e-02 3.287e-01
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACGA 0.250 8.696e-01 8.696e-01 8.696e-01 5.395e-02 3.287e-01
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAACG 0.250 8.696e-01 8.696e-01 8.696e-01 5.395e-02 3.287e-01
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAAC 0.250 8.696e-01 8.696e-01 8.696e-01 5.395e-02 3.287e-01
+AAAAAAAAAAAAATGCATATTTATCTTAGCAAAA 0.270 6.773e-01 6.774e-01 6.769e-01 1.337e-01 3.214e-01
+AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCT 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00
+AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00
+AAAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.020 6.763e-02 2.239e-01 8.765e-03 2.034e+00 1.673e+00
+AAAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.015 6.823e-01 7.910e-01 5.492e-02 3.183e-01 1.201e+00
+AAAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.015 6.823e-01 7.910e-01 5.492e-02 3.183e-01 1.201e+00
+AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTTCAACTAAGGAGCTCATATGTTACTGCAAAAAGAACTAATTCCAATGATAGAAGCTAA 0.115 2.951e-01 2.984e-01 2.906e-01 4.815e-01 4.630e-01
+AAAAAAAAAAAAGTGTTAAAATAAAGAATGTAAACGTTTACTT 0.115 2.951e-01 2.984e-01 2.906e-01 4.815e-01 4.630e-01
+AAAAAAAAAAAAGTGTTAAAATAAA 0.120 2.207e-01 2.249e-01 2.155e-01 5.566e-01 4.586e-01
+AAAAAAAAAAAAGTGTTAAAA 0.120 2.207e-01 2.249e-01 2.155e-01 5.566e-01 4.586e-01
+AAAAAAAAAAAAGTG 0.120 2.207e-01 2.249e-01 2.155e-01 5.566e-01 4.586e-01
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCATTGCATGAG 0.050 2.246e-02 6.522e-02 1.553e-03 1.720e+00 9.329e-01
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGGGGTTTCA 0.050 2.246e-02 6.522e-02 1.553e-03 1.720e+00 9.329e-01
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACTGAATAAACTACATATGTTAGAATAAAAACAAGGAAAAAGAAAGG 0.050 2.246e-02 6.522e-02 1.553e-03 1.720e+00 9.329e-01
+AAAAAAAAAAAAGTTCAAAATGCAATAAAAATAATTGACT 0.055 1.379e-02 4.747e-02 8.661e-04 1.830e+00 9.233e-01
+AAAAAAAAAAAAGTTCAAAATGCA 0.055 1.379e-02 4.747e-02 8.661e-04 1.830e+00 9.233e-01
+AAAAAAAAAAAAGTTCAAAATG 0.055 1.379e-02 4.747e-02 8.661e-04 1.830e+00 9.233e-01
+AAAAAAAAAAAAGTTCAAAAT 0.055 1.379e-02 4.747e-02 8.661e-04 1.830e+00 9.233e-01
+AAAAAAAAAAAAGTT 0.060 4.186e-02 6.017e-02 3.225e-02 1.482e+00 7.883e-01
+AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATATCTGAGGTGTAAGTCCTC 0.025 2.551e-01 3.752e-01 2.321e-02 9.247e-01 1.043e+00
+AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACGATTTAAATCGTCGTTTTTTTGTAGTACGACGGGCATGTCGTATA 0.025 2.551e-01 3.752e-01 2.321e-02 9.247e-01 1.043e+00
+AAAAAAAAAAAATGCATATTTATCTTAGCAGAACGACG 0.025 2.551e-01 3.752e-01 2.321e-02 9.247e-01 1.043e+00
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATAT 0.010 1.986e-01 4.529e-01 3.831e-02 1.428e+00 1.903e+00
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATATCATAAGATAAGTTTTTTATAAAGACACGCAAATGAGTATAAATCAGCTAATTTT 0.010 1.986e-01 4.529e-01 3.831e-02 1.428e+00 1.903e+00
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATAT 0.035 9.076e-01 9.077e-01 9.075e-01 9.015e-02 7.773e-01
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATATA 0.035 9.076e-01 9.077e-01 9.075e-01 9.015e-02 7.773e-01
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATAT 0.045 4.716e-01 4.759e-01 4.661e-01 5.147e-01 7.219e-01
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATATA 0.045 4.716e-01 4.759e-01 4.661e-01 5.147e-01 7.219e-01
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATAT 0.060 4.021e-01 4.066e-01 3.964e-01 5.225e-01 6.296e-01
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATATA 0.060 4.021e-01 4.066e-01 3.964e-01 5.225e-01 6.296e-01
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATAT 0.080 2.491e-01 2.555e-01 2.420e-01 6.360e-01 5.593e-01
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATATA 0.080 2.491e-01 2.555e-01 2.420e-01 6.360e-01 5.593e-01
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATAT 0.095 8.528e-02 9.382e-02 7.808e-02 9.079e-01 5.419e-01
+AAAAAAAAAAAGCATTTTACTATTTTATATATATATA 0.100 1.552e-01 1.619e-01 1.484e-01 7.138e-01 5.103e-01
+AAAAAAAAAAAGCATTTTACTATTTTATATATATAT 0.115 5.475e-01 5.484e-01 5.457e-01 2.719e-01 4.531e-01
+AAAAAAAAAAAGCATTTTACTATTTTATATATATA 0.115 5.475e-01 5.484e-01 5.457e-01 2.719e-01 4.531e-01
+AAAAAAAAAAAGCATTTTACTATTTTATATATAT 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01
+AAAAAAAAAAAGCATTTTACTATTTTATATATA 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01
+AAAAAAAAAAAGCATTTTACTATTTTATATAT 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01
+AAAAAAAAAAAGCATTTTACTATTTTATATA 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01
+AAAAAAAAAAAGCATTTTACTATTTTATAT 0.120 7.264e-01 7.266e-01 7.258e-01 1.542e-01 4.408e-01
+AAAAAAAAAAAGCATTTTACTATTTTATA 0.125 9.144e-01 9.144e-01 9.144e-01 4.626e-02 4.306e-01
+AAAAAAAAAAAGCATTTTACTATTTTA 0.125 9.144e-01 9.144e-01 9.144e-01 4.626e-02 4.306e-01
+AAAAAAAAAAAGCATTTTACTATTTTGTATATATATATATATAT 0.055 6.589e-02 8.577e-02 5.410e-02 1.366e+00 7.952e-01
--
Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/seer.git
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