# HG changeset patch
# User galaxyp
# Date 1476362284 14400
# Node ID cf8eee8343fb0cd4ecf5ac340f832b1665a9439f

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/sixgill commit 547a3bb05a08bc4eaed224b6864a82434e09289d-dirty

diff -r 000000000000 -r cf8eee8343fb macros.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/macros.xml	Thu Oct 13 08:38:04 2016 -0400
@@ -0,0 +1,20 @@
+<macros>
+    <token name="@VERSION@">0.2.4</token>
+    <xml name="requirements">
+        <requirements>
+            <requirement type="package" version="0.2.4">sixgill</requirement>
+            <yield/>
+        </requirements>
+    </xml>
+    <xml name="stdio">
+        <stdio>
+            <exit_code range="1:" />
+        </stdio>
+    </xml>
+    <xml name="citations">
+        <citations>
+            <citation type="doi">10.1021/acs.jproteome.6b00239</citation>
+            <yield />
+        </citations>
+    </xml>
+</macros>
diff -r 000000000000 -r cf8eee8343fb sixgill_build.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/sixgill_build.xml	Thu Oct 13 08:38:04 2016 -0400
@@ -0,0 +1,157 @@
+<tool id="sixgill_build" name="sixgill build" version="@VERSION@.0">
+    <description>a metapeptide database from metagenome fastq files</description>
+    <macros>
+        <import>macros.xml</import>
+    </macros>
+    <expand macro="requirements" />
+    <expand macro="stdio" />
+    <version_command>sixgill_build --version</version_command>
+    <command><![CDATA[
+        sixgill_build 
+            --nogzipout
+            --out=metapeptides_db_output.tsv
+            #if 'fa' in str($output_choice):
+                --outfasta=metapeptides_fa_output.fa
+            #end if
+            #if str($sec_filter.minlength):
+                --minlength=$sec_filter.minlength
+            #end if
+            #if str($sec_filter.minqualscore):
+                --minqualscore=$sec_filter.minqualscore
+            #end if
+            #if str($sec_filter.minorflength):
+                --minorflength=$sec_filter.minorflength
+            #end if
+            #if str($sec_filter.minlongesttryppeplen):
+                --minlongesttryppeplen=$sec_filter.minlongesttryppeplen
+            #end if
+            #if str($sec_filter.minreadcount):
+                --minreadcount=$sec_filter.minreadcount
+            #end if
+            #if str($sec_filter.maxreads):
+                --maxreads=$sec_filter.maxreads
+            #end if
+            #if $sec_mg.metagenefile:
+                --metagenefile="$sec_mg.metagenefile"    
+                #if $sec_mg.minmetagenescore:
+                    --minmetagenescore=$sec_mg.minmetagenescore
+                #end if
+            #end if
+            #for $i, $fastqfile in enumerate($fastqfiles):
+              "$fastqfile"
+            #end for
+    ]]></command>
+    <inputs>
+        <param name="fastqfiles" type="data" format="fastq" multiple="true" optional="false" label="metagenomic fastq files" 
+         help=""/>
+        <section name="sec_filter" expanded="false" title="filter">
+            <param name="minlength" type="integer" value="10" min="0" optional="true" label="minlength"
+                help="min AA length of a metapeptide"/>
+            <param name="minqualscore" type="integer" value="30" min="0" optional="true" label="minqualscore"
+                help="min base-call phred score across any NT in a metapeptide"/>
+            <param name="minorflength" type="integer" value="40" min="0" optional="true" label="minorflength"
+                help="min length of ORF-portion"/>
+            <param name="minlongesttryppeplen" type="integer" value="7" min="0" optional="true" label="minlongesttryppeplen"
+                help="minimum length of the longest tryptic peptide"/>
+            <param name="minreadcount" type="integer" value="2" min="1" optional="true" label="minreadcount"
+                help="minimum read count"/>
+            <param name="maxreads" type="integer" value="" optional="true" label="maxreads"
+                help="stop early if we hit this many reads"/>
+        </section>
+        <section name="sec_mg" expanded="false" title="MetaGene Annotator">
+            <param name="metagenefile" type="data" format="txt" optional="true" label="metagenefile"
+                help="MetaGene Annotator output file. Records must be in same linear order as reads in fastqfiles"/>
+            <param name="minmetagenescore" type="integer" value="" min="-1" optional="true" label="minmetagenescore"
+                help="minimum MetaGene score"/>
+        </section>
+        <param name="output_choice" type="select" multiple="true" optional="false" label="select outputs">
+            <option value="db" selected="true">metapeptide database</option>
+            <option value="fa">metapeptide protein fasta</option>
+        </param>
+    </inputs>
+    <outputs>
+        <data name="output_db" format="tabular" label="${tool.name} on ${on_string}: metapeptides.tsv" from_work_dir="metapeptides_db_output.tsv">
+            <filter>'db' in output_choice</filter>
+            <actions>
+                <action name="comment_lines" type="metadata" default="1" />
+                <action name="column_names" type="metadata" default="sequence,length,min_qualscore,partial_orf_length,metagene_score,read_ids" />
+            </actions>
+        </data>
+        <data name="output_fa" format="fasta" label="${tool.name} on ${on_string}: metapeptides.fa" from_work_dir="metapeptides_fa_output.fa">
+            <filter>'fa' in output_choice</filter>
+        </data>
+    </outputs>
+    <tests>
+        <test>
+            <param name="fastqfiles" ftype="fastq" value="small.fq"/>
+            <param name="minreadcount" value="1"/>
+            <param name="output_choice" value="db,fa"/>
+            <output name="output_db">
+                <assert_contents>
+                    <has_text text="DLRILLRERLVAGDSDEAAVDFIVDR" />
+                </assert_contents>
+            </output>
+            <output name="output_fa">
+                <assert_contents>
+                    <has_text text="DLRILLRERLVAGDSDEAAVDFIVDR" />
+                </assert_contents>
+            </output>
+        </test>
+        <test>
+            <param name="fastqfiles" ftype="fastq" value="small.fq"/>
+            <param name="minreadcount" value="1"/>
+            <param name="metagenefile" ftype="fastq" value="metagene_output.txt"/>
+            <param name="output_choice" value="db"/>
+            <output name="output_db">
+                <assert_contents>
+                    <has_text text="DLRILLRERLVAGDSDEAAVDFIVDR" />
+                </assert_contents>
+            </output>
+        </test>
+
+    </tests>
+    <help><![CDATA[
+        usage: sixgill_build [-h] [--minlength MINLENGTH]
+                     [--minqualscore MINQUALSCORE]
+                     [--metagenefile METAGENEFILE]
+                     [--minmetagenescore MINMETAGENESCORE]
+                     [--minorflength MINORFLENGTH]
+                     [--minlongesttryppeplen MINLONGESTTRYPPEPLEN]
+                     [--maxreads MAXREADS] [--minreadcount MINREADCOUNT] --out
+                     OUT [--outfasta OUTFASTA] [--debug]
+                     fastqfiles [fastqfiles ...]
+
+Read in one or more fastq files. For each read, do a 6-frame translation and
+add all metapeptides that pass the specified filtering criteria. If
+--metagenefile is specified, start with the output of MetaGene Annotator
+instead of raw reads.
+
+positional arguments:
+  fastqfiles            input fastq file(s), bgzipped
+
+optional arguments:
+  -h, --help            show this help message and exit
+  --minlength MINLENGTH
+                        min AA length of a metapeptide
+  --minqualscore MINQUALSCORE
+                        min base-call phred score across any NT in a
+                        metapeptide
+  --metagenefile METAGENEFILE
+                        input MetaGene Annotator output file. Records must be
+                        in same linear order as reads in fastqfiles
+  --minmetagenescore MINMETAGENESCORE
+                        minimum MetaGene score
+  --minorflength MINORFLENGTH
+                        min length of ORF-portion
+  --minlongesttryppeplen MINLONGESTTRYPPEPLEN
+                        minimum length of the longest tryptic peptide
+  --maxreads MAXREADS   stop early if we hit this many reads
+  --minreadcount MINREADCOUNT
+                        minimum read count
+  --out OUT             Output metapeptide database file
+  --outfasta OUTFASTA   Output metapeptide fasta database file
+  --debug               Enable debug logging
+
+    ]]></help>
+    <expand macro="citations" />
+</tool>
diff -r 000000000000 -r cf8eee8343fb sixgill_filter.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/sixgill_filter.xml	Thu Oct 13 08:38:04 2016 -0400
@@ -0,0 +1,120 @@
+<tool id="sixgill_filter" name="sixgill filter" version="@VERSION@.0">
+    <description>a metapeptide database</description>
+    <macros>
+        <import>macros.xml</import>
+    </macros>
+    <expand macro="requirements" />
+    <expand macro="stdio" />
+    <version_command>sixgill_filter --version</version_command>
+    <command><![CDATA[
+        sixgill_filter 
+            --nogzipout
+            --out=metapeptides_db_output.tsv
+            #if str($minorflength) != '':
+                --minorflength=$minorflength
+            #end if
+            #if str($minaaseqlength) != '':
+                --minaaseqlength=$minaaseqlength
+            #end if
+            #if str($minqualscore) != '':
+                --minqualscore=$minqualscore
+            #end if
+            #if str($minlongesttryppeplen) != '':
+                --minlongesttryppeplen=$minlongesttryppeplen
+            #end if
+            #if str($minreadcount) != '':
+                --minreadcount=$minreadcount
+            #end if
+            #if str($maxmetapeptides) != '':
+                --maxmetapeptides=$maxmetapeptides
+            #end if
+            $metapeptide_db
+            #if 'fa' in str($output_choice):
+                && sixgill_makefasta --type=aa --out="metapeptides_fa_output.fa" "metapeptides_db_output.tsv"
+            #end if
+    ]]></command>
+    <inputs>
+        <param name="metapeptide_db" type="data" format="tabular" label="metapeptide database" 
+         help="Can be generated with sixgill_build"/>
+        <param name="minorflength" type="integer" value="40" min="0" optional="true" label="minorflength"
+                help="min length of ORF-portion"/>
+        <param name="minaaseqlength" type="integer" value="10" min="0" optional="true" label="minaaseqlength"
+                help="min AA sequence length"/>
+        <param name="minqualscore" type="integer" value="30" min="0" optional="true" label="minqualscore"
+                help="min base-call phred score across any NT in a metapeptide"/>
+        <param name="minlongesttryppeplen" type="integer" value="7" min="0" optional="true" label="minlongesttryppeplen"
+                help="minimum length of the longest tryptic peptide"/>
+        <param name="minreadcount" type="integer" value="2" min="1" optional="true" label="minreadcount"
+                help="minimum read count"/>
+        <param name="minmetagenescore" type="integer" value="" min="-1" optional="true" label="minmetagenescore"
+                help="minimum MetaGene score"/>
+        <param name="maxmetapeptides" type="integer" value="" optional="true" label="maxmetapeptides"
+                help="maximum number of metapeptides to write"/>
+        <param name="output_choice" type="select" multiple="true" optional="false" label="select outputs">
+            <option value="db" selected="true">metapeptide database</option>
+            <option value="fa">metapeptide protein fasta</option>
+        </param>
+    </inputs>
+    <outputs>
+        <data name="output_db" format="tabular" label="${tool.name} on ${on_string}: metapeptides.tsv" from_work_dir="metapeptides_db_output.tsv">
+            <filter>'db' in output_choice</filter>
+            <actions>
+                <action name="comment_lines" type="metadata" default="1" />
+                <action name="column_names" type="metadata" default="sequence,length,min_qualscore,partial_orf_length,metagene_score,read_ids" />
+            </actions>
+        </data>
+        <data name="output_fa" format="fasta" label="${tool.name} on ${on_string}: metapeptides.fa" from_work_dir="metapeptides_fa_output.fa">
+            <filter>'fa' in output_choice</filter>
+        </data>
+    </outputs>
+    <tests>
+        <test>
+            <param name="metapeptide_db" ftype="tabular" value="metagene_nometagene_merged.metapeptides.tsv"/>
+            <param name="minreadcount" value="2"/>
+            <param name="minaaseqlength" value="12"/>
+            <param name="output_choice" value="db"/>
+            <output name="output_db">
+                <assert_contents>
+                    <has_text text="DLRILLRERLVAGDSDEAAVDFIVDR" />
+                    <not_has_text text="YHNFEGYRWR" />
+                </assert_contents>
+            </output>
+        </test>
+    </tests>
+    <help><![CDATA[
+usage: sixgill_filter [-h] --out OUT [--minorflength MINORFLENGTH]
+                      [--minaaseqlength MINAASEQLENGTH]
+                      [--minreadcount MINREADCOUNT]
+                      [--minqualscore MINQUALSCORE]
+                      [--minlongesttryppeplen MINLONGESTTRYPPEPLEN]
+                      [--minmetagenescore MINMETAGENESCORE]
+                      [--maxmetapeptides MAXMETAPEPTIDES] [--debug]
+                      metapeptidefile
+
+Filter a metapeptide database.
+
+positional arguments:
+  metapeptidefile       input metapeptide database file
+
+optional arguments:
+  -h, --help            show this help message and exit
+  --out OUT             output metapeptide database file
+  --minorflength MINORFLENGTH
+                        minimum ORF length
+  --minaaseqlength MINAASEQLENGTH
+                        minimum AA sequence length
+  --minreadcount MINREADCOUNT
+                        minimum read count
+  --minqualscore MINQUALSCORE
+                        minimum basecall quality
+  --minlongesttryppeplen MINLONGESTTRYPPEPLEN
+                        minimum length of the longest tryptic peptide
+  --minmetagenescore MINMETAGENESCORE
+                        Minimum MetaGene score (-1 for none)
+  --maxmetapeptides MAXMETAPEPTIDES
+                        maximum number of metapeptides to write
+  --debug               Enable debug logging
+
+    ]]></help>
+    <expand macro="citations" />
+</tool>
diff -r 000000000000 -r cf8eee8343fb sixgill_makefasta.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/sixgill_makefasta.xml	Thu Oct 13 08:38:04 2016 -0400
@@ -0,0 +1,76 @@
+<tool id="sixgill_makefasta" name="sixgill makefasta" version="@VERSION@.0">
+    <description>from a metapeptide database</description>
+    <macros>
+        <import>macros.xml</import>
+    </macros>
+    <expand macro="requirements" />
+    <expand macro="stdio" />
+    <version_command>sixgill_makefasta --version</version_command>
+    <command><![CDATA[
+        sixgill_makefasta 
+            --out=metapeptides_fa_output.fa
+            --type="$fa_type.fasta_type"
+            #if $fa_type.fasta_type == 'peptide':
+                --missedcleavages=$fa_type.missedcleavages
+                --minpeptidelength=$fa_type.minpeptidelength
+            #end if
+            "$metapeptide_db"
+    ]]></command>
+    <inputs>
+        <param name="metapeptide_db" type="data" format="tabular" label="metapeptide database" 
+         help="Can be generated with sixgill_build"/>
+        <conditional name="fa_type">
+            <param name="fasta_type" type="select" label="fasta type">
+                <help> peptide with specified missed cleavages requires holding
+                       all peptides in the database in memory, as each is only written once
+                </help>
+                <option value="aa" selected="true">aa - amino acid</option>
+                <option value="peptide">peptide - with specified missed cleavages</option>
+            </param>
+            <when value="aa"/>
+            <when value="peptide">
+                <param name="missedcleavages" type="integer" value="0" min="0" max="6" label="missedcleavages"/>
+                <param name="minpeptidelength" type="integer" value="7" min="1" label="minpeptidelength"/>
+            </when>
+        </conditional>
+        
+    </inputs>
+    <outputs>
+        <data name="output_fa" format="fasta" label="${tool.name} on ${on_string}: metapeptide.fa" from_work_dir="metapeptides_fa_output.fa"/>
+    </outputs>
+    <tests>
+        <test>
+            <param name="metapeptide_db" ftype="tabular" value="testdb_metagene.metapeptides.tsv"/>
+            <param name="fasta_type" value="aa"/>
+            <output name="output_fa">
+                <assert_contents>
+                    <has_text text="DLRILLRERLVAGDSDEAAVDFIVDR" />
+                </assert_contents>
+            </output>
+        </test>
+    </tests>
+    <help><![CDATA[
+usage: sixgill_makefasta [-h] --out OUT --type {aa,peptide}
+                         [--missedcleavages MISSEDCLEAVAGES]
+                         [--minpeptidelength MINPEPTIDELENGTH] [--debug]
+                         metapeptidedbfile
+
+Build a fasta database from a metapeptide database. Either nucleotide or amino
+acid.
+
+positional arguments:
+  metapeptidedbfile     input metapeptide database file
+
+optional arguments:
+  -h, --help            show this help message and exit
+  --out OUT             output file
+  --type {aa,peptide}   database type
+  --missedcleavages MISSEDCLEAVAGES
+                        missed cleavages (for type peptide only)
+  --minpeptidelength MINPEPTIDELENGTH
+                        minimum peptide length (for type peptide only)
+  --debug               Enable debug logging
+
+    ]]></help>
+    <expand macro="citations" />
+</tool>
diff -r 000000000000 -r cf8eee8343fb sixgill_merge.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/sixgill_merge.xml	Thu Oct 13 08:38:04 2016 -0400
@@ -0,0 +1,70 @@
+<tool id="sixgill_merge" name="sixgill merge" version="@VERSION@.0">
+    <description>metapeptide databases</description>
+    <macros>
+        <import>macros.xml</import>
+    </macros>
+    <expand macro="requirements" />
+    <expand macro="stdio" />
+    <version_command>sixgill_merge --version</version_command>
+    <command><![CDATA[
+        sixgill_merge 
+            --nogzipout
+            --out=metapeptides_db_output.tsv
+            #for ($i,$metapeptide_db) in enumerate($metapeptide_dbs)
+                "$metapeptide_db"
+            #end for
+            #if 'fa' in str($output_choice):
+                &&
+                sixgill_makefasta --type=aa --out="metapeptides_fa_output.fa" "metapeptides_db_output.tsv"
+            #end if
+    ]]></command>
+    <inputs>
+        <param name="metapeptide_dbs" type="data" format="tabular" multiple="true" optional="false" label="metapeptide databases" 
+         help="Can be generated with sixgill_build"/>
+        <param name="output_choice" type="select" multiple="true" optional="false" label="select outputs">
+            <option value="db" selected="true">metapeptide database</option>
+            <option value="fa">metapeptide protein fasta</option>
+        </param>
+    </inputs>
+    <outputs>
+        <data name="output_db" format="tabular" label="${tool.name} on ${on_string}: metapeptides.tsv" from_work_dir="metapeptides_db_output.tsv">
+            <filter>'db' in output_choice</filter>
+            <actions>
+                <action name="comment_lines" type="metadata" default="1" />
+                <action name="column_names" type="metadata" default="sequence,length,min_qualscore,partial_orf_length,metagene_score,read_ids" />
+            </actions>
+        </data>
+        <data name="output_fa" format="fasta" label="${tool.name} on ${on_string}: metapeptides.fa" from_work_dir="metapeptides_fa_output.fa">
+            <filter>'fa' in output_choice</filter>
+        </data>
+    </outputs>
+    <tests>
+        <test>
+            <param name="metapeptide_dbs" ftype="tabular" 
+                   value="testdb_metagene.metapeptides.tsv,testdb_nometagene.metapeptides.tsv"/>
+            <output name="output_db">
+                <assert_contents>
+                    <has_text text="DLRILLRERLVAGDSDEAAVDFIVDR" />
+                    <has_text text="YHNFEGYRWR" />
+                </assert_contents>
+            </output>
+        </test>
+    </tests>
+    <help><![CDATA[
+usage: sixgill_merge [-h] --out OUT [--debug]
+                     metapeptidedbfiles [metapeptidedbfiles ...]
+
+Merge multiple metapeptide database files into a single metapeptide database.
+Optionally, filter simultaneously.
+
+positional arguments:
+  metapeptidedbfiles  input metapeptide database files
+
+optional arguments:
+  -h, --help          show this help message and exit
+  --out OUT           output file
+  --debug             Enable debug logging
+
+    ]]></help>
+    <expand macro="citations" />
+</tool>
diff -r 000000000000 -r cf8eee8343fb test-data/metagene_nometagene_merged.metapeptides.tsv
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/metagene_nometagene_merged.metapeptides.tsv	Thu Oct 13 08:38:04 2016 -0400
@@ -0,0 +1,51 @@
+sequence	length	min_qualscore	partial_orf_length	metagene_score	read_ids
+TTLIERVVDECSLKK	15	36	96	7.73277	C57KNANXX:5:1101:10000:79229/1,C57KNANXX:5:1101:10000:79229/1
+DLRILLRERLVAGDSDEAAVDFIVDR	26	31	96	6.45153	C57KNANXX:5:1101:10001:25583/1,C57KNANXX:5:1101:10001:25583/1
+KNNSSCSFCGKKR	13	34	54	-1.0	C57KNANXX:5:1101:10000:48824/1
+AATPVGATTIFLSEHSSTTLSIR	23	36	96	-1.0	C57KNANXX:5:1101:10000:79229/1
+RITTLKPFSCNNFTVK	16	38	96	-1.0	C57KNANXX:5:1101:10000:23019/1
+FHLNYQKFFFQKHLPPLIIK	20	34	96	-1.0	C57KNANXX:5:1101:10000:91317/1
+HASIHQFGIVGCNIIWAKPK	20	32	96	-1.0	C57KNANXX:5:1101:10000:60887/1
+NLSYQSNTELKSNLNFQLVCEIRILIK	27	34	96	-1.0	C57KNANXX:5:1101:10000:46059/1
+ISPKLSKVLFSKTSATFNNKADNSSSICFR	30	34	96	-1.0	C57KNANXX:5:1101:10000:91317/1
+LLQEKGFNVVILFSGKEHK	19	38	96	4.26594	C57KNANXX:5:1101:10000:23019/1,C57KNANXX:5:1101:10000:23019/1
+SIPQISTGDMLRAAVK	16	36	93	3.85469	C57KNANXX:5:1101:10000:12567/1,C57KNANXX:5:1101:10000:12567/1
+CSKRSPCSHWYYRR	14	35	96	-1.0	C57KNANXX:5:1101:10000:9540/1
+SVQFEPGVTRFR	12	37	96	-1.0	C57KNANXX:5:1101:10000:58282/1
+VLRYDEGIDSLISIGQSCYGK	21	37	69	2.77044	C57KNANXX:5:1101:10000:99203/1
+HWRVICVFCCANVWLLGTVTKRR	23	35	96	-1.0	C57KNANXX:5:1101:10001:25583/1
+QHPFLQTNHCPLVFVSPVLQIILGSMR	27	38	96	-1.0	C57KNANXX:5:1101:10000:76185/1
+LSAKQVKQILMDSGLSVK	18	38	96	5.18638	C57KNANXX:5:1101:10000:76185/1,C57KNANXX:5:1101:10000:76185/1
+SSDLILPKIICKTGETNTNGQWFVCK	26	38	93	-1.0	C57KNANXX:5:1101:10000:76185/1
+DIANIISYGVSTSNSCIYRISSNNNR	26	34	93	-1.0	C57KNANXX:5:1101:10000:3140/1
+LIMFLTNNSSIQEVLFFPQMRPEVVQKK	28	34	96	5.30784	C57KNANXX:5:1101:10000:92875/1,C57KNANXX:5:1101:10000:92875/1
+QIRHLACEPDVVSSQR	16	36	96	-1.0	C57KNANXX:5:1101:10000:29932/1
+YHNFEGYRWR	10	34	93	-1.0	C57KNANXX:5:1101:10000:68440/1
+RTAGWIRHQAHRPSALFAVGKNQR	24	36	93	-1.0	C57KNANXX:5:1101:10000:29932/1
+ACFAGKDIVVPGVANKLTAIITHFFSK	27	33	96	6.29703	C57KNANXX:5:1101:10001:17691/1,C57KNANXX:5:1101:10001:17691/1
+ELFFGKIGRAVQQECRDR	18	38	96	6.34832	C57KNANXX:5:1101:10000:24094/1,C57KNANXX:5:1101:10000:24094/1
+SPEEIRELSKFKKPIFYDGKFFDIK	25	38	96	13.1057	C57KNANXX:5:1101:10000:84210/1,C57KNANXX:5:1101:10000:84210/1
+SSDLDQAAQQFIVPRKGVLELAR	23	35	96	4.65375	C57KNANXX:5:1101:10000:86801/1,C57KNANXX:5:1101:10000:86801/1
+VNGVVITVSPPTITLKVVISKPR	23	34	93	5.75404	C57KNANXX:5:1101:10000:68440/1,C57KNANXX:5:1101:10000:68440/1
+DFTPKRQSYWATFR	14	38	96	6.38445	C57KNANXX:5:1101:10001:17914/1,C57KNANXX:5:1101:10001:17914/1
+LRERIVFWQDRK	12	38	96	-1.0	C57KNANXX:5:1101:10000:24094/1
+KCVIIAVSLLATPGTTMSFPAK	22	33	96	-1.0	C57KNANXX:5:1101:10001:17691/1
+NSLKFSILQIYIIYIYITIK	20	37	96	-1.0	C57KNANXX:5:1101:10000:29175/1
+RASSNTPLRGTINCCAAWSRSEERFSR	27	35	96	-1.0	C57KNANXX:5:1101:10000:86801/1
+FAPYVTRSMLLRAYRRRDRRHVER	24	31	96	-1.0	C57KNANXX:5:1101:10000:73874/1
+AKVNNAVVDFQFFDR	15	36	96	10.6388	C57KNANXX:5:1101:10001:15683/1,C57KNANXX:5:1101:10001:15683/1
+LTGQVPYLPWAKIK	14	36	96	5.61044	C57KNANXX:5:1101:10000:29932/1,C57KNANXX:5:1101:10000:29932/1
+LGLGPDDVTSDNPKLVYGR	19	32	96	2.81286	C57KNANXX:5:1101:10000:60887/1,C57KNANXX:5:1101:10000:60887/1
+SVPAFTAARSISPVEIWGIDRK	22	31	90	-1.0	C57KNANXX:5:1101:10000:12567/1
+NIIKKMDLVLTGEGSFDVQSTYGK	24	34	93	8.76308	C57KNANXX:5:1101:10000:99902/1,C57KNANXX:5:1101:10000:99902/1
+LRILLLSVNLTGRLLETNPKHSK	23	36	93	-1.0	C57KNANXX:5:1101:10001:17914/1
+SQHPAAMTHSGVPKDRRAVIGITEGLIR	28	35	96	-1.0	C57KNANXX:5:1101:10000:9540/1
+KIIQVVHSVEKK	12	34	51	-1.0	C57KNANXX:5:1101:10000:48824/1
+QIDEELSALLLKVADVFEKR	20	36	93	13.3198	C57KNANXX:5:1101:10000:91317/1,C57KNANXX:5:1101:10000:91317/1
+IIELEHQILKVEGSIMELEKTIVDK	25	36	96	19.4442	C57KNANXX:5:1101:10000:73724/1,C57KNANXX:5:1101:10000:73724/1
+SNFVQSKLNYLYLHR	15	37	93	-1.0	C57KNANXX:5:1101:10000:99203/1
+NANKNVIFFMILILYKNNK	19	38	66	4.82132	C57KNANXX:5:1101:10000:61940/1
+VLEIYPTNIIYFLIVK	16	36	60	5.37246	C57KNANXX:5:1101:10000:33905/1
+KFDEITLDVYYKKGKESSK	19	33	96	22.2262	C57KNANXX:5:1101:10001:101410/1,C57KNANXX:5:1101:10001:101410/1
+DVIECRAPQGVCSHYMLVFLRMEPKFCKEV	30	38	93	0.240116	C57KNANXX:5:1101:10000:19758/1
+QETIALENEIELLQAQIEQIGRAVQQECR	29	35	96	3.85699	C57KNANXX:5:1101:10000:58282/1,C57KNANXX:5:1101:10000:58282/1
diff -r 000000000000 -r cf8eee8343fb test-data/metagene_nometagene_merged.min2reads.metapeptides.tsv
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/metagene_nometagene_merged.min2reads.metapeptides.tsv	Thu Oct 13 08:38:04 2016 -0400
@@ -0,0 +1,21 @@
+sequence	length	min_qualscore	partial_orf_length	metagene_score	read_ids
+TTLIERVVDECSLKK	15	36	96	7.73277	C57KNANXX:5:1101:10000:79229/1,C57KNANXX:5:1101:10000:79229/1
+DLRILLRERLVAGDSDEAAVDFIVDR	26	31	96	6.45153	C57KNANXX:5:1101:10001:25583/1,C57KNANXX:5:1101:10001:25583/1
+LLQEKGFNVVILFSGKEHK	19	38	96	4.26594	C57KNANXX:5:1101:10000:23019/1,C57KNANXX:5:1101:10000:23019/1
+SIPQISTGDMLRAAVK	16	36	93	3.85469	C57KNANXX:5:1101:10000:12567/1,C57KNANXX:5:1101:10000:12567/1
+LSAKQVKQILMDSGLSVK	18	38	96	5.18638	C57KNANXX:5:1101:10000:76185/1,C57KNANXX:5:1101:10000:76185/1
+LIMFLTNNSSIQEVLFFPQMRPEVVQKK	28	34	96	5.30784	C57KNANXX:5:1101:10000:92875/1,C57KNANXX:5:1101:10000:92875/1
+ACFAGKDIVVPGVANKLTAIITHFFSK	27	33	96	6.29703	C57KNANXX:5:1101:10001:17691/1,C57KNANXX:5:1101:10001:17691/1
+ELFFGKIGRAVQQECRDR	18	38	96	6.34832	C57KNANXX:5:1101:10000:24094/1,C57KNANXX:5:1101:10000:24094/1
+SPEEIRELSKFKKPIFYDGKFFDIK	25	38	96	13.1057	C57KNANXX:5:1101:10000:84210/1,C57KNANXX:5:1101:10000:84210/1
+SSDLDQAAQQFIVPRKGVLELAR	23	35	96	4.65375	C57KNANXX:5:1101:10000:86801/1,C57KNANXX:5:1101:10000:86801/1
+VNGVVITVSPPTITLKVVISKPR	23	34	93	5.75404	C57KNANXX:5:1101:10000:68440/1,C57KNANXX:5:1101:10000:68440/1
+DFTPKRQSYWATFR	14	38	96	6.38445	C57KNANXX:5:1101:10001:17914/1,C57KNANXX:5:1101:10001:17914/1
+AKVNNAVVDFQFFDR	15	36	96	10.6388	C57KNANXX:5:1101:10001:15683/1,C57KNANXX:5:1101:10001:15683/1
+LTGQVPYLPWAKIK	14	36	96	5.61044	C57KNANXX:5:1101:10000:29932/1,C57KNANXX:5:1101:10000:29932/1
+LGLGPDDVTSDNPKLVYGR	19	32	96	2.81286	C57KNANXX:5:1101:10000:60887/1,C57KNANXX:5:1101:10000:60887/1
+NIIKKMDLVLTGEGSFDVQSTYGK	24	34	93	8.76308	C57KNANXX:5:1101:10000:99902/1,C57KNANXX:5:1101:10000:99902/1
+QIDEELSALLLKVADVFEKR	20	36	93	13.3198	C57KNANXX:5:1101:10000:91317/1,C57KNANXX:5:1101:10000:91317/1
+IIELEHQILKVEGSIMELEKTIVDK	25	36	96	19.4442	C57KNANXX:5:1101:10000:73724/1,C57KNANXX:5:1101:10000:73724/1
+KFDEITLDVYYKKGKESSK	19	33	96	22.2262	C57KNANXX:5:1101:10001:101410/1,C57KNANXX:5:1101:10001:101410/1
+QETIALENEIELLQAQIEQIGRAVQQECR	29	35	96	3.85699	C57KNANXX:5:1101:10000:58282/1,C57KNANXX:5:1101:10000:58282/1
diff -r 000000000000 -r cf8eee8343fb test-data/metagene_output.txt
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/metagene_output.txt	Thu Oct 13 08:38:04 2016 -0400
@@ -0,0 +1,168 @@
+# C57KNANXX:5:1101:10000:12567/1
+# gc = 0.553191, rbs = -1
+# self: -
+gene_1	1	94	-	0	00	3.85469	p	-	-	-
+# C57KNANXX:5:1101:10000:19758/1
+# gc = 0.402062, rbs = -1
+# self: -
+gene_1	1	97	-	1	01	0.240116	b	-	-	-
+# C57KNANXX:5:1101:10000:23019/1
+# gc = 0.329897, rbs = -1
+# self: -
+gene_1	1	97	+	1	00	4.26594	b	-	-	-
+# C57KNANXX:5:1101:10000:24094/1
+# gc = 0.474227, rbs = -1
+# self: -
+gene_1	1	97	+	1	00	6.34832	p	-	-	-
+# C57KNANXX:5:1101:10000:25279/1
+# gc = 0.360825, rbs = -1
+# self: -
+gene_1	1	97	+	1	00	16.3044	p	-	-	-
+# C57KNANXX:5:1101:10000:28635/1
+# gc = 0.278351, rbs = -1
+# self: -
+gene_1	1	97	+	2	00	4.69095	a	-	-	-
+# C57KNANXX:5:1101:10000:29175/1
+# gc = 0.154639, rbs = -1
+# self: -
+# C57KNANXX:5:1101:10000:29932/1
+# gc = 0.536082, rbs = -1
+# self: -
+gene_1	1	97	+	0	10	5.61044	p	-	-	-
+# C57KNANXX:5:1101:10000:3140/1
+# gc = 0.443299, rbs = -1
+# self: -
+gene_1	1	97	+	2	00	8.08669	b	-	-	-
+# C57KNANXX:5:1101:10000:32777/1
+# gc = 0.484536, rbs = -1
+# self: -
+gene_1	1	97	-	0	00	6.4402	b	-	-	-
+# C57KNANXX:5:1101:10000:33905/1
+# gc = 0.216495, rbs = -1
+# self: -
+gene_1	34	97	-	1	01	5.37246	b	-	-	-
+# C57KNANXX:5:1101:10000:34777/1
+# gc = 0.195876, rbs = -1
+# self: -
+# C57KNANXX:5:1101:10000:46059/1
+# gc = 0.257732, rbs = -1
+# self: -
+# C57KNANXX:5:1101:10000:47265/1
+# gc = 0.564516, rbs = -1
+# self: -
+# C57KNANXX:5:1101:10000:54860/1
+# gc = 0.257732, rbs = -1
+# self: -
+gene_1	1	97	+	2	00	10.6181	b	-	-	-
+# C57KNANXX:5:1101:10000:58282/1
+# gc = 0.515464, rbs = -1
+# self: -
+gene_1	1	97	+	0	00	3.85699	b	-	-	-
+# C57KNANXX:5:1101:10000:60887/1
+# gc = 0.56701, rbs = -1
+# self: -
+gene_1	1	97	-	1	00	2.81286	p	-	-	-
+# C57KNANXX:5:1101:10000:61940/1
+# gc = 0.134021, rbs = -1
+# self: -
+gene_1	1	70	+	1	01	4.82132	p	-	-	-
+# C57KNANXX:5:1101:10000:68440/1
+# gc = 0.453608, rbs = -1
+# self: -
+gene_1	1	97	+	2	00	5.75404	a	-	-	-
+# C57KNANXX:5:1101:10000:73724/1
+# gc = 0.237113, rbs = -1
+# self: -
+gene_1	1	97	+	1	00	19.4442	b	-	-	-
+# C57KNANXX:5:1101:10000:73874/1
+# gc = 0.556701, rbs = -1
+# self: -
+gene_1	1	97	+	1	00	4.20317	b	-	-	-
+# C57KNANXX:5:1101:10000:76185/1
+# gc = 0.371134, rbs = -1
+# self: -
+gene_1	1	97	-	0	00	5.18638	a	-	-	-
+# C57KNANXX:5:1101:10000:76393/1
+# gc = 0.28866, rbs = -1
+# self: -
+gene_1	1	71	-	0	10	17.9709	a	-	-	-
+# C57KNANXX:5:1101:10000:79229/1
+# gc = 0.412371, rbs = -1
+# self: -
+gene_1	1	97	+	1	00	7.73277	a	-	-	-
+# C57KNANXX:5:1101:10000:84210/1
+# gc = 0.257732, rbs = -1
+# self: -
+gene_1	1	97	-	0	00	13.1057	p	-	-	-
+# C57KNANXX:5:1101:10000:85460/1
+# gc = 0.329897, rbs = -1
+# self: -
+# C57KNANXX:5:1101:10000:86801/1
+# gc = 0.525773, rbs = -1
+# self: -
+gene_1	1	97	-	1	00	4.65375	b	-	-	-
+# C57KNANXX:5:1101:10000:88288/1
+# gc = 0.329897, rbs = -1
+# self: -
+gene_1	1	97	+	0	00	15.2122	p	-	-	-
+# C57KNANXX:5:1101:10000:90246/1
+# gc = 0.278351, rbs = -1
+# self: -
+# C57KNANXX:5:1101:10000:91317/1
+# gc = 0.268041, rbs = -1
+# self: -
+gene_1	1	97	-	2	00	13.3198	b	-	-	-
+# C57KNANXX:5:1101:10000:92875/1
+# gc = 0.309278, rbs = -1
+# self: -
+gene_1	1	97	-	0	10	5.30784	b	-	-	-
+# C57KNANXX:5:1101:10000:9540/1
+# gc = 0.453608, rbs = -1
+# self: -
+# C57KNANXX:5:1101:10000:99203/1
+# gc = 0.381443, rbs = -1
+# self: -
+gene_1	29	97	+	0	10	2.77044	b	20	25	-1.94891
+# C57KNANXX:5:1101:10000:99902/1
+# gc = 0.28866, rbs = -1
+# self: -
+gene_1	1	97	-	2	00	8.76308	a	-	-	-
+# C57KNANXX:5:1101:10001:100058/1
+# gc = 0.22619, rbs = -1
+# self: -
+gene_1	3	84	+	0	10	5.19281	b	-	-	-
+# C57KNANXX:5:1101:10001:101410/1
+# gc = 0.28866, rbs = -1
+# self: -
+gene_1	1	97	+	0	00	22.2262	p	-	-	-
+# C57KNANXX:5:1101:10001:15683/1
+# gc = 0.381443, rbs = -1
+# self: -
+gene_1	1	97	+	1	00	10.6388	b	-	-	-
+# C57KNANXX:5:1101:10001:17691/1
+# gc = 0.381443, rbs = -1
+# self: -
+gene_1	1	97	+	1	00	6.29703	a	-	-	-
+# C57KNANXX:5:1101:10001:17914/1
+# gc = 0.42268, rbs = -1
+# self: -
+gene_1	1	97	+	1	00	6.38445	p	-	-	-
+# C57KNANXX:5:1101:10001:18762/1
+# gc = 0.43299, rbs = -1
+# self: -
+gene_1	1	97	-	2	00	3.80632	b	-	-	-
+# C57KNANXX:5:1101:10001:19988/1
+# gc = 0.350515, rbs = -1
+# self: -
+gene_1	1	97	-	0	00	14.6087	a	-	-	-
+# C57KNANXX:5:1101:10001:20542/1
+# gc = 0.43299, rbs = -1
+# self: -
+# C57KNANXX:5:1101:10001:25583/1
+# gc = 0.546392, rbs = -1
+# self: -
+gene_1	1	97	-	0	00	6.45153	b	-	-	-
+# C57KNANXX:5:1101:10001:26391/1
+# gc = 0.463918, rbs = -1
+# self: -
+gene_1	1	97	-	2	00	9.77924	p	-	-	-
diff -r 000000000000 -r cf8eee8343fb test-data/small.fq
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/small.fq	Thu Oct 13 08:38:04 2016 -0400
@@ -0,0 +1,200 @@
+@C57KNANXX:5:1101:10000:12567/1
+TCTTGCCTAAGTCAGTGCCCGCCTTTACGGCAGCACGGAGCATATCGCCCGTAGAAATCTGGGGGATAGATCGGAAGAGCGGTTCAGCAGGAAT
++
+CCGGGGGGGDGGG@GGGGGGGGGGGGEGGGGGGGGGFGGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGCGGGFGGG
+@C57KNANXX:5:1101:10000:19758/1
+CTAAACTTCTTTACAAAACTTAGGTTCCATTCTTAAAAACACCAGCATATAATGGCTACAGACTCCCTGTGGTGCTCGACATTCGATAACGTCCTTG
++
+CCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10000:23019/1
+CAACCACACACTTTTAACGGTGAAATTATTACAAGAAAAGGGTTTTAATGTCGTTATTCTTTTTTCTGGGAAGGAGCATAAAACGACAGAAGAAATT
++
+CCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10000:24094/1
+GGCTATTTTTGGTGCAGACTCAGAGAAAGAATTGTTTTTTGGCAAGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGACCGTGCAGTGAATCTCGTA
++
+CCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG=;DGGGG
+@C57KNANXX:5:1101:10000:25279/1
+AATCTTATTTGGTCCTCCTGGAGCAGGTAAAGGAACACAAGCTCAACACATTGTAAAAGATTATGACTATTTTCAAATATCAACTGGCGATATGTTG
++
+CCGGGGGGGGGGGGGGGGGGGGGGGGGEGGGGGGGGGGGGGGGGGGGGGGGGGEGGGGGEGGGGGFFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10000:28635/1
+AATTAAAGTCATCAGTACCAAAAGATTTTGAATCTACAAGCTATAAAGATTCAAAATCTGATACCCTACATTATTGGTTTAAACCTTTCGTAGAAAA
++
+CCFFGGGGGGGGFFGGGGGGGGGGG=FGGGGGGGGGGGCGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGEGGGGGGGGBGGFEGGGGGGGG
+@C57KNANXX:5:1101:10000:29175/1
+ACAAATATAAGAATTTAATTGTAATATAAATATAAATAATGTATATTTGTAATATGGAAAATTTTAAAGAATTCTTAGAGGAGTTAGAAGATAATAA
++
+CCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGEGGGGGGGDGGGGEGCGGGGGGGG
+@C57KNANXX:5:1101:10000:29932/1
+GTGATTGGGGATTACACCGAAGAACCGCTGGCTGGATACGACATCAGGCTCACAGGCCAAGTGCCTTATTTGCCGTGGGCAAAAATCAAAGGCACCC
++
+CCGFGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGEFGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10000:3140/1
+CTACACTCACGGTTGTTGTTGGAGGAGATACGGTAGATACAGCTATTGGAGGTACTTACTCCGTAACTTATAATGTTAGCGATGTCTCTGGCAATGC
++
+CCGGCGGGGGFGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGCGGGGGGGGGCGGG
+@C57KNANXX:5:1101:10000:32777/1
+CAAATACCCCCGCGGGTCCTAGAACCAGTATTTCGAAAGCACGGGTATAGCGTTTATGTTCACCGGCAAAGCGTATTTTTACCTGACGAATCGCTTG
++
+CCGGGGGGGGGGGGGGGGGGGGGGGGGGG>FGGFGGGGGGGGGBACDGGGGGGGGGGGGGGGGGGCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGB
+@C57KNANXX:5:1101:10000:33905/1
+GTTAGAAAGTAAACCAAACATAGGAACAACTTTTTATTTTACAATTAAAAAATAAATAATATTAGTAGGATATATTTCTAATACTCTAGTAACAAGC
++
+CCGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGEGGGEGGGGFGGGGGGD
+@C57KNANXX:5:1101:10000:34777/1
+ATATTAAATCATTAAGATATTCGTCGGAGCTAAAAAAATATAATTGACAAATATTAGTTAAGTAAATTTTCTTGCTCATTTTAAAAAGTTAAACTAA
++
+CCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGEGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10000:46059/1
+CTTTTTAATTAAGATTCTGATTTCGCAAACAAGCTGAAAATTCAGATTTGATTTTAATTCAGTATTTGACTGATAACTCAGATTTCTATTTAGATTC
++
+CCGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGCGGGGGGGGGGE>FFF
+@C57KNANXX:5:1101:10000:47265/1
+TTATCTAGAGTGCCCCCGGTATGGCCTAAGCCACGGCCAGAAATCATCGGCACATATGCCCC
++
+CCGGGGGGGGGGGGGGFG<EGGGEGGGGGGGGGGDGGGGGGGFGGGGGGGGGGEGGGGG>GG
+@C57KNANXX:5:1101:10000:48824/1
+AGATACATCATCTCTTTTTTTTCCACAGAATGAACAACTTGAATTATTTTTTTTA
++
+CBGCDFGGGGGFGFGGGGGGGGCGEEGGGGGGGGGGGEGGGEGGGFGGGGGGGG@
+@C57KNANXX:5:1101:10000:54860/1
+CTATTTTTACTTTTTCGGTTTTTAGTGACGTATCAAAAGATTTAATGCAACTTAGAATGATTAAATCTGCTGAAGAAATAGAAATCATTAAAAATGG
++
+CCGGGFGGGGGGGGGGGGBGGGGGGGG>GGGGGGGFGGEGGGGGGGGGGGGGGFEGGGG>GG@GGGGGGGCDGFGGGEGGGFGGGGFGGGGEGGGGG
+@C57KNANXX:5:1101:10000:58282/1
+AGGCAAGAGACGATTGCCCTGGAAAACGAAATCGAGTTACTCCAGGCTCAAATTGAACAGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGACCGTG
++
+CCGGGGGGGGGGDGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10000:60158/1
+TATGACAGAGGCAGTCCCAAAACCAAGAACGGTCCTGAAGCTGGTGT
++
+BBGGGGGGGGDGGGGGGGEGGGGGGBGBEFCEFGGGGGGGGGGGC@<
+@C57KNANXX:5:1101:10000:60887/1
+GCCGTTTTGGCCCCACCCCGTCATGCGTCCATACACCAGTTTGGGATTGTCGGATGTAACATCATCTGGGCCAAGCCCAAGTCGCTCCATAACGCCT
++
+BCGGGGGGGGGGGGGGGGGGGGGGGGGGGGBGCGGGGGGGGGGDGGGGGGGGGAGGGCGGGGGGGGGFGGGGGGFGGGGGGGGFGGFG=GGGGGGDG
+@C57KNANXX:5:1101:10000:61940/1
+AGAAATCAAAAACGCAAATAAAAATGTTATTTTTTTCATGATATTAATTTTGTATAAAAATAATAAATAAATCGTTTAAAACAATATTATTACAATA
++
+CCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGFGGGGGGGG
+@C57KNANXX:5:1101:10000:65336/1
+TACTTTTACAATTGTAAGACATTAACCATGAGTTCATCATTTGAAAAACATC
++
+BBG@F>FEFF>GGGGGGGG>CGGGGGGG>FGGGGGEGGFGGGEGGGGGGGGC
+@C57KNANXX:5:1101:10000:66846/1
+GCAGTCCCAAGCCCCTTAAAACCTTTTGATGCAGATTCAGTTCCTTTTTCAACGTCAA
++
+BBGGGGGEGGGGGGGGGGGGGGGGGGCDGGGFGG>FGGGGGGGGGGGGGGE@FGCDG>
+@C57KNANXX:5:1101:10000:68440/1
+GCAGCGACTATTATCCACTGCGCGTTAATGGTGTTGTAATAACTGTAAGTCCGCCAACGATAACCCTCAAAGTTGTGATATCGAAACCCAGGTTGCA
++
+CCGGGGGGGGGFGEGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10000:73724/1
+AAATAAAATTATTGAGTTAGAGCATCAGATTTTAAAAGTTGAAGGTTCTATTATGGAACTTGAAAAGACTATTGTCGATAAGATTGATATATTAATT
++
+CCEGGGGGGGGGGGGGGGGGFGEEGGGGGGGGGGGGGGGGGEGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGEGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10000:73874/1
+GCCGCGCGATTTGCGCCGTATGTTACCAGGTCAATGCTACTACGTGCCTATCGTCGACGAGACAGGCGGCATGTTGAACGATCCTGTCTGCCTAAAG
++
+CCEGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGBGGGG@GGGGGGGGGGGGGGGGGGGGGGGGDGGGGGGGGGB
+@C57KNANXX:5:1101:10000:76185/1
+AAACAACATCCATTTTTACAGACAAACCACTGTCCATTAGTATTTGTTTCACCTGTTTTGCAGATAATTTTGGGTAGTATGAGATCGGAAGAGCGGT
++
+CCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10000:76393/1
+TTTGCTAAAGCATCTACACCACGTTTTAATCCGTCTCTAGCGTCTATATCAAATTTTATATCTTTTGCCATTGTTTTTAAATTTTGCTTTTAACTAT
++
+CCGGGEGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGEGGGGGGGGGGGGGGGFG
+@C57KNANXX:5:1101:10000:79229/1
+AACTGGTAAAACTACCCTTATTGAGAGGGTTGTGGATGAATGTTCACTTAAAAAAATGGTGGTTGCCCCCACTGGTGTTGCTGCTTTAAATATCGGT
++
+CCGGGGGGGGGGGGGGGGGGGEGGGGGGGGGGGGGGFGGGGGGGGGGGGGEGGGGGGGGGGGGGGGGGEGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10000:81980/1
+GTTTTTCCCAATAATTCTTTTGCAGCAACGCTTAACTCTTCAATGG
++
+BBFGGGFGGGGGGGGGGGGGGGGFGGEGGGGGGGGGGGGGG>ECFG
+@C57KNANXX:5:1101:10000:82990/1
+CTCTCTAATGGTAAAAGTTTATTAGCAGCTGGTATCAAAAAGGTATCTGG
++
+FGEFGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGFGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10000:84210/1
+CAATTAATGTATTCTTTATGTCAAAGAACTTACCATCATAAAAAATAGGCTTTTTAAATTTTGAAAGTTCTCTTATTTCTTCAGGACTTCTTTGTGT
++
+CCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGDG
+@C57KNANXX:5:1101:10000:85460/1
+CAGAAGCTGCAGCTGAATAATCTAAACTTATTTCAAGTATAGATTGGTACAAGAGTATAAAATTTAGAAAAGCGTTACACGTGTGTAGCGCTTTTTT
++
+CCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10000:86801/1
+CAGGCGCGCAAGCTCTAATACACCCTTACGTGGAACGATAAATTGTTGTGCAGCTTGGTCTAGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGACC
++
+CCGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGEGGGGGDGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGDGG
+@C57KNANXX:5:1101:10000:88288/1
+ATTATCTCAGGCGATTTGACTATAACAGGTGACGCCACAGAACTTCAAACAACTAATACTGCAATTACAGATAATGTTATTGTATTAAACAAAGAGA
++
+BBGGGGGGGGGFGGGGGGGGGGGGGGGEGGGGGGGGGGGGGGGGGG>FGGGGGGGGGGGGGGGGGGGEGGGGG>FBDGGGGGGGGGGGGGGGEG>FG
+@C57KNANXX:5:1101:10000:90246/1
+CTACCCTAAATTAAAGAGCGGCTTGTAAATAAAAAATCCCTACTAAAAGCAAGGATTGTATCTTAAAGGGTTATTATTTTATTAAAAACAAACTTCA
++
+CCGGGGGGGCEGEGGGGGGGGGGGGGEGGCEGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGEGGGCGEG>GCFGGG@FGDGGGGGGG
+@C57KNANXX:5:1101:10000:91317/1
+AAAATTTCACCTAAATTATCAAAAGTTCTTTTTTCAAAAACATCTGCCACCTTTAATAATAAAGCAGATAATTCTTCATCTATTTGCTTCAGGTCAT
++
+CCEGEGGGFGGEGEGGDCGEGGGEEGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGEGGGGGGGGFGEGGEFGGGGGGGGGGGGGGFGGG
+@C57KNANXX:5:1101:10000:92875/1
+CAATTTTCTTTTGAACTACCTCAGGTCTCATTTGAGGAAAAAACAATACTTCTTGGATGGATGAATTGTTCGTTAAGAACATAATTAATCTATCCAT
++
+CCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGEGGGGFGCDFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10000:9540/1
+AACTGATATTCTGATTAAACCTTCGGTAATACCAATGACTGCACGGCGATCTTTTGGAACACCTGAATGTGTCATTGCTGCTGGGTGCTGAGATCGG
++
+CCDGGFGGGGGGGGGGGGGGGGGGGFGGGEDGGGGEGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10000:99203/1
+CGTCGATGAGTAGAGTTGTGGGTAAAAAGTGTTACGTTACGATGAAGGTATAGATAGTTTAATTTCGATTGGACAAAGTTGCTACGGTAAATCCAGA
++
+CCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10000:99902/1
+ATTTTATAGGGTAATTTCCCATAAGTACTTTGAACGTCAAAACTTCCTTCTCCTGTAAGAACTAGATCCATTTTTTTTATAATGTTTTTTAGGTTTG
++
+CBF>FEGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGCFGGGGGGGGGEGGGGGGGGEGGGGGGGGGGGGGGGBF>GFG8
+@C57KNANXX:5:1101:10001:100058/1
+AAGTGTTAACTAAAAATTTTAATAAAAGAACAGTTAATCAAGTTGTTGATCCAAAAATTTTAAAATTTTGGAGAAAGCAACTGT
++
+CCGGGGGGGGGGGG>GGGCGGEGGGGGGGGGGGGGGGGGGGGGGGGGGGGCGGEDEFGGCFDGGGEGEFGGGFGGGGGGGGGGG
+@C57KNANXX:5:1101:10001:101410/1
+GGTGAAAAGAAATTTGATGAAATTACTTTAGATGTTTATTATAAAAAAGGGAAAGAATCCTCTAAATTATATGATGATGCACATGAGATCGGAAGAG
++
+BBGEDGGCGEGGGGGGGGGGGGGGFGGGGGGGGGGEGGEGGGGGGGGDGBBGGGGGGGGGGGGGGGGGGGGGGGCGC@GGGGGGGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10001:15683/1
+ATTAGAACTAGAATTAATTCAGGCGGCCTCAACAGCTGCAAAAGCGAAGGTTAATAACGCCGTTGTAGATTTTCAATTTTTTGATCGACTCGATCAA
++
+CCGGGGGGGGGGGGGGEGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGEGGGGGGGGGGGGGFFGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10001:17691/1
+AATTGGTATAAAAGCCTGTTTTGCAGGGAAGGACATTGTAGTTCCCGGTGTTGCCAATAAACTTACAGCAATAATTACGCACTTCTTTTCAAAGACA
++
+CCGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGFBGGGGGFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGCGGGGGGGGGGGGGGGGDGGGGG
+@C57KNANXX:5:1101:10001:17914/1
+TAGCCTTGAAATTAAGGATTTTACTCCTAAGCGTCAATCTTACTGGGCGACTTTTAGAGACCAACCCCAAGCATTCGAAATTCTGGTGCTCAACAAG
++
+CCEGGGGGGGGGGGEGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10001:18762/1
+AAAGCCGTTGCAGAAGCTGTAATATAAGCCCCAATACCAAAAAATGCCTGTTGTCCAAAAGAGACCTCCCCAACCACTAGCACCAAATAAGCAGAAA
++
+CBFGGGGGGGGGGGGGGGGGFGGGGGGGGGGGGGGGGGG@BG>GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10001:19988/1
+TTCTCACCATGTCAAATTGAGCTTCTGGATAGTTTATAACACCAGATGTGTTTAAGGTATGAGCTATTGGAGTGTAGTCTAAATACTCATAAACTTC
++
+BBGGGGGGGGGGFGFGGGGGGGCD>FGGGGGGEEGFGGDGGGGGGGGGGGGGGGGGGGGGGGGGGCGGGGGGGGGGGGGGGGFGGGGFGGGGGGGGG
+@C57KNANXX:5:1101:10001:20542/1
+GCAATAGTCATCTCATCTATCAATACAGAACCAATGTATTGAGAACCATTTTTGTAAGAGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGACCGTG
++
+CCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGCFGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10001:25583/1
+CGTAGCGATCAACGATAAAATCCACCGCCGCTTCGTCACTGTCCCCAGCAACCAAACGTTCGCGCAACAGAATACGCAAATCACGCGCCAATGACGC
++
+CCGGGGD@GGGGGGBGGBGGGGGGGGGGGGGGGGGGGGFDGGGEGGGGGGGGGGGGGGDGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
+@C57KNANXX:5:1101:10001:26391/1
+AGAACAATACCTTCCGCTCCTAATCCCATAACGTCATCAGCGGTTAATGCATCATTCCGATGAACAACAACTTCTGTCCCCAGCTCGCCAATGTAGT
++
+CCGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG<GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGFFFGGGG
diff -r 000000000000 -r cf8eee8343fb test-data/testdb_metagene.metapeptides.fasta
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/testdb_metagene.metapeptides.fasta	Thu Oct 13 08:38:04 2016 -0400
@@ -0,0 +1,48 @@
+>TTLIERVVDECSLKK
+TTLIERVVDECSLKK
+>DLRILLRERLVAGDSDEAAVDFIVDR
+DLRILLRERLVAGDSDEAAVDFIVDR
+>VLRYDEGIDSLISIGQSCYGK
+VLRYDEGIDSLISIGQSCYGK
+>QIDEELSALLLKVADVFEKR
+QIDEELSALLLKVADVFEKR
+>LLQEKGFNVVILFSGKEHK
+LLQEKGFNVVILFSGKEHK
+>SIPQISTGDMLRAAVK
+SIPQISTGDMLRAAVK
+>SPEEIRELSKFKKPIFYDGKFFDIK
+SPEEIRELSKFKKPIFYDGKFFDIK
+>LSAKQVKQILMDSGLSVK
+LSAKQVKQILMDSGLSVK
+>LIMFLTNNSSIQEVLFFPQMRPEVVQKK
+LIMFLTNNSSIQEVLFFPQMRPEVVQKK
+>ACFAGKDIVVPGVANKLTAIITHFFSK
+ACFAGKDIVVPGVANKLTAIITHFFSK
+>ELFFGKIGRAVQQECRDR
+ELFFGKIGRAVQQECRDR
+>SSDLDQAAQQFIVPRKGVLELAR
+SSDLDQAAQQFIVPRKGVLELAR
+>VNGVVITVSPPTITLKVVISKPR
+VNGVVITVSPPTITLKVVISKPR
+>DFTPKRQSYWATFR
+DFTPKRQSYWATFR
+>AKVNNAVVDFQFFDR
+AKVNNAVVDFQFFDR
+>LTGQVPYLPWAKIK
+LTGQVPYLPWAKIK
+>LGLGPDDVTSDNPKLVYGR
+LGLGPDDVTSDNPKLVYGR
+>NIIKKMDLVLTGEGSFDVQSTYGK
+NIIKKMDLVLTGEGSFDVQSTYGK
+>IIELEHQILKVEGSIMELEKTIVDK
+IIELEHQILKVEGSIMELEKTIVDK
+>NANKNVIFFMILILYKNNK
+NANKNVIFFMILILYKNNK
+>VLEIYPTNIIYFLIVK
+VLEIYPTNIIYFLIVK
+>KFDEITLDVYYKKGKESSK
+KFDEITLDVYYKKGKESSK
+>DVIECRAPQGVCSHYMLVFLRMEPKFCKEV
+DVIECRAPQGVCSHYMLVFLRMEPKFCKEV
+>QETIALENEIELLQAQIEQIGRAVQQECR
+QETIALENEIELLQAQIEQIGRAVQQECR
diff -r 000000000000 -r cf8eee8343fb test-data/testdb_metagene.metapeptides.tsv
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/testdb_metagene.metapeptides.tsv	Thu Oct 13 08:38:04 2016 -0400
@@ -0,0 +1,25 @@
+sequence	length	min_qualscore	partial_orf_length	metagene_score	read_ids
+TTLIERVVDECSLKK	15	36	96	7.73277	C57KNANXX:5:1101:10000:79229/1
+DLRILLRERLVAGDSDEAAVDFIVDR	26	31	96	6.45153	C57KNANXX:5:1101:10001:25583/1
+VLRYDEGIDSLISIGQSCYGK	21	37	69	2.77044	C57KNANXX:5:1101:10000:99203/1
+QIDEELSALLLKVADVFEKR	20	36	93	13.3198	C57KNANXX:5:1101:10000:91317/1
+LLQEKGFNVVILFSGKEHK	19	38	96	4.26594	C57KNANXX:5:1101:10000:23019/1
+SIPQISTGDMLRAAVK	16	36	93	3.85469	C57KNANXX:5:1101:10000:12567/1
+SPEEIRELSKFKKPIFYDGKFFDIK	25	38	96	13.1057	C57KNANXX:5:1101:10000:84210/1
+LSAKQVKQILMDSGLSVK	18	38	96	5.18638	C57KNANXX:5:1101:10000:76185/1
+LIMFLTNNSSIQEVLFFPQMRPEVVQKK	28	34	96	5.30784	C57KNANXX:5:1101:10000:92875/1
+ACFAGKDIVVPGVANKLTAIITHFFSK	27	33	96	6.29703	C57KNANXX:5:1101:10001:17691/1
+ELFFGKIGRAVQQECRDR	18	38	96	6.34832	C57KNANXX:5:1101:10000:24094/1
+SSDLDQAAQQFIVPRKGVLELAR	23	35	96	4.65375	C57KNANXX:5:1101:10000:86801/1
+VNGVVITVSPPTITLKVVISKPR	23	34	93	5.75404	C57KNANXX:5:1101:10000:68440/1
+DFTPKRQSYWATFR	14	38	96	6.38445	C57KNANXX:5:1101:10001:17914/1
+AKVNNAVVDFQFFDR	15	36	96	10.6388	C57KNANXX:5:1101:10001:15683/1
+LTGQVPYLPWAKIK	14	36	96	5.61044	C57KNANXX:5:1101:10000:29932/1
+LGLGPDDVTSDNPKLVYGR	19	32	96	2.81286	C57KNANXX:5:1101:10000:60887/1
+NIIKKMDLVLTGEGSFDVQSTYGK	24	34	93	8.76308	C57KNANXX:5:1101:10000:99902/1
+IIELEHQILKVEGSIMELEKTIVDK	25	36	96	19.4442	C57KNANXX:5:1101:10000:73724/1
+NANKNVIFFMILILYKNNK	19	38	66	4.82132	C57KNANXX:5:1101:10000:61940/1
+VLEIYPTNIIYFLIVK	16	36	60	5.37246	C57KNANXX:5:1101:10000:33905/1
+KFDEITLDVYYKKGKESSK	19	33	96	22.2262	C57KNANXX:5:1101:10001:101410/1
+DVIECRAPQGVCSHYMLVFLRMEPKFCKEV	30	38	93	0.240116	C57KNANXX:5:1101:10000:19758/1
+QETIALENEIELLQAQIEQIGRAVQQECR	29	35	96	3.85699	C57KNANXX:5:1101:10000:58282/1
diff -r 000000000000 -r cf8eee8343fb test-data/testdb_nometagene.metapeptides.tsv
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/testdb_nometagene.metapeptides.tsv	Thu Oct 13 08:38:04 2016 -0400
@@ -0,0 +1,47 @@
+sequence	length	min_qualscore	partial_orf_length	metagene_score	read_ids
+TTLIERVVDECSLKK	15	36	96	-1.0	C57KNANXX:5:1101:10000:79229/1
+DLRILLRERLVAGDSDEAAVDFIVDR	26	31	96	-1.0	C57KNANXX:5:1101:10001:25583/1
+KNNSSCSFCGKKR	13	34	54	-1.0	C57KNANXX:5:1101:10000:48824/1
+AATPVGATTIFLSEHSSTTLSIR	23	36	96	-1.0	C57KNANXX:5:1101:10000:79229/1
+RITTLKPFSCNNFTVK	16	38	96	-1.0	C57KNANXX:5:1101:10000:23019/1
+FHLNYQKFFFQKHLPPLIIK	20	34	96	-1.0	C57KNANXX:5:1101:10000:91317/1
+HASIHQFGIVGCNIIWAKPK	20	32	96	-1.0	C57KNANXX:5:1101:10000:60887/1
+SNFVQSKLNYLYLHR	15	37	93	-1.0	C57KNANXX:5:1101:10000:99203/1
+NLSYQSNTELKSNLNFQLVCEIRILIK	27	34	96	-1.0	C57KNANXX:5:1101:10000:46059/1
+LLQEKGFNVVILFSGKEHK	19	38	96	-1.0	C57KNANXX:5:1101:10000:23019/1
+SIPQISTGDMLRAAVK	16	36	93	-1.0	C57KNANXX:5:1101:10000:12567/1
+SVQFEPGVTRFR	12	37	96	-1.0	C57KNANXX:5:1101:10000:58282/1
+DFTPKRQSYWATFR	14	38	96	-1.0	C57KNANXX:5:1101:10001:17914/1
+HWRVICVFCCANVWLLGTVTKRR	23	35	96	-1.0	C57KNANXX:5:1101:10001:25583/1
+QHPFLQTNHCPLVFVSPVLQIILGSMR	27	38	96	-1.0	C57KNANXX:5:1101:10000:76185/1
+LSAKQVKQILMDSGLSVK	18	38	96	-1.0	C57KNANXX:5:1101:10000:76185/1
+SSDLILPKIICKTGETNTNGQWFVCK	26	38	93	-1.0	C57KNANXX:5:1101:10000:76185/1
+DIANIISYGVSTSNSCIYRISSNNNR	26	34	93	-1.0	C57KNANXX:5:1101:10000:3140/1
+LIMFLTNNSSIQEVLFFPQMRPEVVQKK	28	34	96	-1.0	C57KNANXX:5:1101:10000:92875/1
+QIRHLACEPDVVSSQR	16	36	96	-1.0	C57KNANXX:5:1101:10000:29932/1
+YHNFEGYRWR	10	34	93	-1.0	C57KNANXX:5:1101:10000:68440/1
+RTAGWIRHQAHRPSALFAVGKNQR	24	36	93	-1.0	C57KNANXX:5:1101:10000:29932/1
+ACFAGKDIVVPGVANKLTAIITHFFSK	27	33	96	-1.0	C57KNANXX:5:1101:10001:17691/1
+ELFFGKIGRAVQQECRDR	18	38	96	-1.0	C57KNANXX:5:1101:10000:24094/1
+SPEEIRELSKFKKPIFYDGKFFDIK	25	38	96	-1.0	C57KNANXX:5:1101:10000:84210/1
+SSDLDQAAQQFIVPRKGVLELAR	23	35	96	-1.0	C57KNANXX:5:1101:10000:86801/1
+VNGVVITVSPPTITLKVVISKPR	23	34	93	-1.0	C57KNANXX:5:1101:10000:68440/1
+ISPKLSKVLFSKTSATFNNKADNSSSICFR	30	34	96	-1.0	C57KNANXX:5:1101:10000:91317/1
+LRERIVFWQDRK	12	38	96	-1.0	C57KNANXX:5:1101:10000:24094/1
+KCVIIAVSLLATPGTTMSFPAK	22	33	96	-1.0	C57KNANXX:5:1101:10001:17691/1
+NSLKFSILQIYIIYIYITIK	20	37	96	-1.0	C57KNANXX:5:1101:10000:29175/1
+RASSNTPLRGTINCCAAWSRSEERFSR	27	35	96	-1.0	C57KNANXX:5:1101:10000:86801/1
+FAPYVTRSMLLRAYRRRDRRHVER	24	31	96	-1.0	C57KNANXX:5:1101:10000:73874/1
+AKVNNAVVDFQFFDR	15	36	96	-1.0	C57KNANXX:5:1101:10001:15683/1
+LTGQVPYLPWAKIK	14	36	96	-1.0	C57KNANXX:5:1101:10000:29932/1
+LGLGPDDVTSDNPKLVYGR	19	32	96	-1.0	C57KNANXX:5:1101:10000:60887/1
+SQHPAAMTHSGVPKDRRAVIGITEGLIR	28	35	96	-1.0	C57KNANXX:5:1101:10000:9540/1
+NIIKKMDLVLTGEGSFDVQSTYGK	24	34	93	-1.0	C57KNANXX:5:1101:10000:99902/1
+LRILLLSVNLTGRLLETNPKHSK	23	36	93	-1.0	C57KNANXX:5:1101:10001:17914/1
+SVPAFTAARSISPVEIWGIDRK	22	31	90	-1.0	C57KNANXX:5:1101:10000:12567/1
+KIIQVVHSVEKK	12	34	51	-1.0	C57KNANXX:5:1101:10000:48824/1
+QIDEELSALLLKVADVFEKR	20	36	93	-1.0	C57KNANXX:5:1101:10000:91317/1
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