Mercurial > repos > iuc > dexseq
changeset 2:6e8b61c54ff3 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dexseq commit 0a56599c36b4968095ec5a3cb589f94fb139466c
author | iuc |
---|---|
date | Sun, 28 Jan 2018 04:04:39 -0500 |
parents | f1c406f9554c |
children | f89c9b25feb4 |
files | dexseq.R dexseq.xml dexseq_count.xml macros.xml test-data/dexseq_result.tabular test-data/dexseq_result_2fact.tabular test-data/flattened.gtf |
diffstat | 7 files changed, 865 insertions(+), 519 deletions(-) [+] |
line wrap: on
line diff
--- a/dexseq.R Sun Jan 29 06:59:35 2017 -0500 +++ b/dexseq.R Sun Jan 28 04:04:39 2018 -0500 @@ -3,9 +3,11 @@ # we need that to not crash galaxy with an UTF8 error on German LC settings. Sys.setlocale("LC_MESSAGES", "en_US.UTF-8") -library("DEXSeq") -library('getopt') -library('rjson') +suppressPackageStartupMessages({ + library("DEXSeq") + library('getopt') + library('rjson') +}) options(stringAsfactors = FALSE, useFancyQuotes = FALSE) @@ -90,7 +92,7 @@ BPPARAM=MulticoreParam(workers=opt$threads) dxd <- estimateDispersions(dxd, formula=formulaFullModel, BPPARAM=BPPARAM) print("Estimated dispersions") -dxd <- testForDEU(dxd, fullModel=formulaFullModel, BPPARAM=BPPARAM) +dxd <- testForDEU(dxd, reducedModel=formulaReducedModel, fullModel=formulaFullModel, BPPARAM=BPPARAM) print("tested for DEU") dxd <- estimateExonFoldChanges(dxd, fitExpToVar=primaryFactor, BPPARAM=BPPARAM) print("Estimated fold changes") @@ -111,7 +113,7 @@ if ( !is.null(opt$reportdir) ) { save(dxd, resSorted, file = file.path(opt$reportdir,"DEXSeq_analysis.RData")) save.image() - DEXSeqHTML(res, path=opt$reportdir, FDR=opt$fdr, color=c("#B7FEA0", "#FF8F43", "#637EE9", "#FF0000", "#F1E7A1", "#C3EEE7","#CEAEFF", "#EDC3C5", "#AAA8AA")) + DEXSeqHTML(res, fitExpToVar=primaryFactor, path=opt$reportdir, FDR=opt$fdr, color=c("#B7FEA0", "#FF8F43", "#637EE9", "#FF0000", "#F1E7A1", "#C3EEE7","#CEAEFF", "#EDC3C5", "#AAA8AA")) unlink(file.path(opt$reportdir,"DEXSeq_analysis.RData")) } sessionInfo()
--- a/dexseq.xml Sun Jan 29 06:59:35 2017 -0500 +++ b/dexseq.xml Sun Jan 28 04:04:39 2018 -0500 @@ -1,10 +1,12 @@ -<tool id="dexseq" name="DEXSeq" version="1.20.1"> +<tool id="dexseq" name="DEXSeq" version="@VERSION@.0"> <description>Determines differential exon usage from count tables</description> - <requirements> - <requirement type="package" version="1.20.1">bioconductor-dexseq</requirement> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements"> <requirement type="package" version="1.20.0">r-getopt</requirement> <requirement type="package" version="0.2.15">r-rjson</requirement> - </requirements> + </expand> <code file="dexseq_helper.py" /> <stdio> <regex match="Execution halted" @@ -24,50 +26,45 @@ level="fatal" description="Error in the R script." /> </stdio> - <version_command> - <![CDATA[ - echo $(R --version | grep version | grep -v GNU)", DEXSeq version" $(R --vanilla --slave -e "library(DEXSeq); cat(sessionInfo()\$otherPkgs\$DEXSeq\$Version)" 2> /dev/null | grep -v -i "WARNING: ")" (depends on DESeq2 "$(R --vanilla --slave -e "library(DESeq2); cat(sessionInfo()\$otherPkgs\$DESeq2\$Version)" 2> /dev/null | grep -v -i "WARNING: ")")" - ]]> - </version_command> - <command> - <![CDATA[ - mkdir ./html_out && - #import json - Rscript '$__tool_directory__/dexseq.R' - -o '$dexseq_out' - -p \${GALAXY_SLOTS:-4} - #set $temp_factor_names = list() - #for $factor in $rep_factorName: - #set $temp_factor = list() - #set $count_files1 = list() - #for $file in $factor.countFiles1: - $count_files1.append(str($file)) - #end for - $temp_factor.append( {str($factor.factorLevel1): $count_files1} ) + <version_command><![CDATA[ +echo $(R --version | grep version | grep -v GNU)", DEXSeq version" $(R --vanilla --slave -e "library(DEXSeq); cat(sessionInfo()\$otherPkgs\$DEXSeq\$Version)" 2> /dev/null | grep -v -i "WARNING: ")" (depends on DESeq2 "$(R --vanilla --slave -e "library(DESeq2); cat(sessionInfo()\$otherPkgs\$DESeq2\$Version)" 2> /dev/null | grep -v -i "WARNING: ")")" + ]]></version_command> + <command><![CDATA[ + mkdir ./html_out && + #import json + Rscript '$__tool_directory__/dexseq.R' + -o '$dexseq_out' + -p \${GALAXY_SLOTS:-4} + #set $temp_factor_names = list() + #for $factor in $rep_factorName: + #set $temp_factor = list() + #set $count_files1 = list() + #for $file in $factor.countFiles1: + $count_files1.append(str($file)) + #end for + $temp_factor.append( {str($factor.factorLevel1): $count_files1} ) - #set $count_files2 = list() - #for $file in $factor.countFiles2: - $count_files2.append(str($file)) - #end for - $temp_factor.append( {str($factor.factorLevel2): $count_files2} ) - $temp_factor_names.append([str($factor.factorName), $temp_factor]) - #end for - -f '#echo json.dumps(temp_factor_names)#' - -a $gtf - -c $fdr_cutoff + #set $count_files2 = list() + #for $file in $factor.countFiles2: + $count_files2.append(str($file)) + #end for + $temp_factor.append( {str($factor.factorLevel2): $count_files2} ) + $temp_factor_names.append([str($factor.factorName), $temp_factor]) + #end for + -f '#echo json.dumps(temp_factor_names)#' + -a $gtf + -c $fdr_cutoff - #if $report: - -r ./html_out - && - mkdir '$htmlreport.extra_files_path' - && - cp ./html_out/testForDEU.html $htmlreport - && - cp -r ./html_out/* '$htmlreport.extra_files_path' - #end if - - ]]> - </command> + #if $report: + -r ./html_out + && + mkdir '$htmlreport.extra_files_path' + && + cp ./html_out/testForDEU.html $htmlreport + && + cp -r ./html_out/* '$htmlreport.extra_files_path' + #end if + ]]></command> <inputs> <param name="gtf" type="data" format="gtf,gff" label="GTF file created from DEXSeq-Count tool"/> <repeat name="rep_factorName" title="Factor" min="1"> @@ -105,7 +102,36 @@ </data> </outputs> <tests> - <test> + <!-- Ensure default output works--> + <test expect_num_outputs="1"> + <param name="gtf" value="dexseq.gtf" ftype="gtf"/> + <repeat name="rep_factorName"> + <param name="factorName" value="condition"/> + <param name="factorLevel1" value="knockdown"/> + <param name="countFiles1" value="treated1fb.txt,treated2fb.txt,treated3fb.txt" ftype="tabular"/> + <param name="factorLevel2" value="control"/> + <param name="countFiles2" value="untreated1fb.txt,untreated2fb.txt,untreated3fb.txt,untreated4fb.txt" ftype="tabular"/> + </repeat> + <param name="report" value="False"/> + <param name="fdr_cutoff" value="1"/> + <output name="dexseq_out" file="dexseq_result.tabular" ftype="tabular"/> + </test> + <!-- Ensure report works--> + <test expect_num_outputs="2"> + <param name="gtf" value="dexseq.gtf" ftype="gtf"/> + <repeat name="rep_factorName"> + <param name="factorName" value="Treatment"/> + <param name="factorLevel1" value="knockdown"/> + <param name="countFiles1" value="treated1fb.txt,treated2fb.txt,treated3fb.txt" ftype="tabular"/> + <param name="factorLevel2" value="control"/> + <param name="countFiles2" value="untreated1fb.txt,untreated2fb.txt,untreated3fb.txt,untreated4fb.txt" ftype="tabular"/> + </repeat> + <param name="report" value="True"/> + <param name="fdr_cutoff" value="1"/> + <output name="dexseq_out" file="dexseq_result.tabular" ftype="tabular"/> + </test> + <!-- Ensure two factors works--> + <test expect_num_outputs="1"> <param name="gtf" value="dexseq.gtf" ftype="gtf"/> <repeat name="rep_factorName"> <param name="factorName" value="condition"/> @@ -123,11 +149,10 @@ </repeat> <param name="report" value="False"/> <param name="fdr_cutoff" value="0.05"/> - <output name="dexseq_out" file="dexseq_result.tabular" ftype="tabular"/> + <output name="dexseq_out" file="dexseq_result_2fact.tabular" ftype="tabular"/> </test> </tests> - <help> - <![CDATA[ + <help><![CDATA[ .. class:: infomark **What it does** @@ -139,7 +164,7 @@ DEXSeq_ takes count tables generated from the dexseq_count as input. Count tables must be generated for each sample individually. DEXSeq_ is capable of handling multiple factors that effect your experiment. The first factor you input is considered as the primary -factor that affects gene expressions. Primary factor should always be named as 'condition'. You also input several secondary factors that might +factor that affects gene expressions. You also input several secondary factors that might influence your experiment. But the final output will be changes in genes due to primary factor in presence of secondary factors. Each factor has two levels/states. You need to select appropriate count table from your history for each factor level. @@ -186,8 +211,7 @@ .. _DEXSeq: http://master.bioconductor.org/packages/release/bioc/html/DEXSeq.html - ]]> - </help> + ]]></help> <citations> <citation type="doi">10.1101/gr.133744.111</citation> </citations>
--- a/dexseq_count.xml Sun Jan 29 06:59:35 2017 -0500 +++ b/dexseq_count.xml Sun Jan 28 04:04:39 2018 -0500 @@ -1,9 +1,11 @@ -<tool id="dexseq_count" name="DEXSeq-Count" version="1.20.1"> +<tool id="dexseq_count" name="DEXSeq-Count" version="@VERSION@.0"> <description>Prepare and count exon abundancies from RNA-seq data</description> - <requirements> - <requirement type="package" version="1.20.1">bioconductor-dexseq</requirement> - <requirement type="package" version="0.6.1.post1">htseq</requirement> - </requirements> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements"> + <requirement type="package" version="0.9.1">htseq</requirement> + </expand> <stdio> <!-- Anything other than zero is an error --> <exit_code range="1:" /> @@ -12,26 +14,24 @@ <regex match="Error:" /> <regex match="Exception:" /> </stdio> - <command> - <![CDATA[ - #if $mode.mode_select == "prepare": - dexseq_prepare_annotation.py - -r $mode.aggregate - '$mode.gtffile' - '$flattened_gtf_out' - #elif $mode.mode_select == "count": - dexseq_count.py - -f bam - -p $mode.paired - -s $mode.stranded - -a $mode.qual - -r $mode.order - $mode.flattened_gtf_in - '$mode.bamfile' - '$counts_file' - #end if - ]]> - </command> + <command><![CDATA[ +#if $mode.mode_select == "prepare": + dexseq_prepare_annotation.py + -r $mode.aggregate + '$mode.gtffile' + '$flattened_gtf_out' +#elif $mode.mode_select == "count": + dexseq_count.py + -f bam + -p $mode.paired + -s $mode.stranded + -a $mode.qual + -r $mode.order + $mode.flattened_gtf_in + '$mode.bamfile' + '$counts_file' +#end if + ]]></command> <inputs> <conditional name="mode"> <param name="mode_select" type="select" label="Mode of operation"> @@ -76,33 +76,31 @@ <param name="mode_select" value="prepare" /> <param name="gtffile" ftype="gff" value="original.gtf"/> <param name="aggregate" value="True"/> - <output name="flattened_gtf_out" file="flattened.gtf" ftype="gtf"/> + <output name="flattened_gtf_out" ftype="gtf" compare="sim_size" file="flattened.gtf"/> </test> </tests> - <help> - <![CDATA[ + <help><![CDATA[ .. class:: infomark **What it does** -The main goal of this tol is to count the number of reads/fragments per exon of each gene in RNA-seq sample. In addition it also prepares your annotation gtf file compatible for counting. +The main goal of this tool is to count the number of reads/fragments per exon of each gene in RNA-seq samples. In addition, it also prepares your annotation GTF file, making it compatible for counting. **Inputs** -Mode-preprare: Takes a normal gtf file as input. For example from ensembl database. -Mode-count: Inputs are flattened gtf file and BAM file. The flattened gtf file can be generated from 'prepare' mode of this tool. +Mode-preprare: Takes a normal gtf file as input. For example from Ensembl database. +Mode-count: Inputs are flattened GTF file and BAM file. The flattened GTF file can be generated from 'prepare' mode of this tool. **Output** -Mode-preprare: Flattened gtf file that contains only exons with corresponding gene ids from given gtf file. Sometimes two or more genes sharing an exon will be merged into an 'aggregate gene' if the aggregate option was used. -Mode-count: Two column tab-delimeted file with exon ids and their read counts. +Mode-prepare: Flattened GTF file that contains only exons with corresponding gene ids from given GTF file. Sometimes two or more genes sharing an exon will be merged into an 'aggregate gene' if the aggregate option was used. +Mode-count: Two column tab-delimited file with exon ids and their read counts. .. _DEXSeq: http://master.bioconductor.org/packages/release/bioc/html/DEXSeq.html - ]]> - </help> + ]]></help> <citations> <citation type="doi">10.1101/gr.133744.111</citation> </citations>
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/macros.xml Sun Jan 28 04:04:39 2018 -0500 @@ -0,0 +1,15 @@ +<?xml version="1.0"?> +<macros> + <token name="@VERSION@">1.24.0</token> + <xml name="requirements"> + <requirements> + <requirement type="package" version="@VERSION@">bioconductor-dexseq</requirement> + <yield /> + </requirements> + </xml> + <xml name="citations"> + <citations> + <citation type="doi">10.1101/gr.133744.111</citation> + </citations> + </xml> +</macros> \ No newline at end of file
--- a/test-data/dexseq_result.tabular Sun Jan 29 06:59:35 2017 -0500 +++ b/test-data/dexseq_result.tabular Sun Jan 28 04:04:39 2018 -0500 @@ -1,183 +1,214 @@ -FBgn0000064:E005 FBgn0000064 E005 859.822533198768 0.00400580335097871 103.648404274913 3.11196699769697e-23 5.44594224596969e-21 27.5051135091719 27.9888903359156 0.0251544333390813 3R 22082655 22082854 200 - 746 952 1227 542 790 802 722 FBtr0085000, FBtr0085001, FBtr0084995, FBtr0084994, FBtr0306657, FBtr0114544, FBtr0310661, FBtr0310660, FBtr0084999 -FBgn0000042:E001 FBgn0000042 E001 963.266257907235 0.0494674041791383 58.6864023046738 1.80471928079693e-13 1.57912937069731e-11 29.2361793929567 27.8104974337299 -0.0721252413332429 X 5794894 5795046 153 + 3322 262 275 1633 3139 244 129 FBtr0100662, FBtr0100663, FBtr0070822 -FBgn0000064:E002 FBgn0000064 E002 7.3266084748515 0.0174415205517328 52.6891313145547 3.61993278740899e-12 2.11162745932191e-10 4.57344268891687 4.36382559042999 -0.0676871299306827 3R 22080926 22081153 228 - 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3 0 0 0 0 1 2 FBtr0070504 +FBgn0000097:E001 FBgn0000097 E001 461.645239176362 0.0264146082892386 0.386255142400046 0.534274455629809 0.988468331356457 2.65129247574911 2.68561302638461 0.114255611444293 2L 2156484 2156791 308 - 1032 322 349 473 887 310 283 FBtr0330658, FBtr0077850, FBtr0077851 +FBgn0000097:E002 FBgn0000097 E002 400.358490752986 0.0211688957763105 0.00906998068475673 0.924127021656261 0.988468331356457 2.61026782575458 2.59055853734866 -0.0656375704307912 2L 2156792 2157426 635 - 517 327 402 386 671 348 286 FBtr0330658, FBtr0330659, FBtr0077850, FBtr0077851 +FBgn0000097:E005 FBgn0000097 E005 205.994534916873 0.02529210118653 0.00167027172474832 0.967400364721523 0.988468331356457 2.32080102272482 2.31669047726328 -0.013720798508424 2L 2159312 2160582 1271 - 436 153 131 240 419 142 115 FBtr0330658, FBtr0330660, FBtr0077850, FBtr0077851, FBtr0330659 +FBgn0000099:E004 FBgn0000099 E004 0.0883366573889214 0.276372945032103 0.32040554034921 0.571364031945868 0.988468331356457 0.0663881029123329 0.000137613770407437 -9.02560014872561 2R 1596116 1596372 257 - 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0 0 0 0 0 0 0 FBtr0083387, FBtr0306337, FBtr0300485, FBtr0083388 +FBgn0000014:E003 FBgn0000014 E003 0 NA NA NA NA NA NA NA 3R 12635854 12636077 224 - 0 0 0 0 0 0 0 FBtr0083387, FBtr0306337, FBtr0300485, FBtr0083388 +FBgn0000014:E004 FBgn0000014 E004 0 NA NA NA NA NA NA NA 3R 12648144 12648191 48 - 0 0 0 0 0 0 0 FBtr0083387, FBtr0306337, FBtr0300485, FBtr0083388 +FBgn0000014:E005 FBgn0000014 E005 0 NA NA NA NA NA NA NA 3R 12651773 12652029 257 - 0 0 0 0 0 0 0 FBtr0083387, FBtr0306337, FBtr0300485, FBtr0083388 +FBgn0000014:E006 FBgn0000014 E006 0 NA NA NA NA NA NA NA 3R 12652857 12653359 503 - 0 0 0 0 0 0 0 FBtr0083387, FBtr0306337, FBtr0300485, FBtr0083388 +FBgn0000014:E007 FBgn0000014 E007 0 NA NA NA NA NA NA NA 3R 12653360 12653460 101 - 0 0 0 0 0 0 0 FBtr0306337, FBtr0300485, FBtr0083388 +FBgn0000014:E008 FBgn0000014 E008 0 NA NA NA NA NA NA NA 3R 12653461 12653619 159 - 0 0 0 0 0 0 0 FBtr0083387, FBtr0306337, FBtr0300485, FBtr0083388 +FBgn0000014:E010 FBgn0000014 E010 0 NA NA NA NA NA NA NA 3R 12654643 12655300 658 - 0 0 0 0 0 0 0 FBtr0083387, FBtr0306337, FBtr0300485 +FBgn0000015:E001 FBgn0000015 E001 0 NA NA NA NA NA NA NA 3R 12752932 12753394 463 - 0 0 0 0 0 0 0 FBtr0083385 +FBgn0000015:E003 FBgn0000015 E003 0 NA NA NA NA NA NA NA 3R 12755360 12755574 215 - 0 0 0 0 0 0 0 FBtr0330709, FBtr0083385, FBtr0083384, FBtr0083383, FBtr0083382, FBtr0083381 +FBgn0000015:E004 FBgn0000015 E004 0 NA NA NA NA NA NA NA 3R 12756838 12757039 202 - 0 0 0 0 0 0 0 FBtr0330709, FBtr0083385, FBtr0083384, FBtr0083383, FBtr0083382, FBtr0083381 +FBgn0000015:E005 FBgn0000015 E005 0 NA NA NA NA NA NA NA 3R 12757124 12757335 212 - 0 0 0 0 0 0 0 FBtr0330709, FBtr0083385, FBtr0083384, FBtr0083383, FBtr0083382, FBtr0083381 +FBgn0000015:E007 FBgn0000015 E007 0 NA NA NA NA NA NA NA 3R 12761649 12761826 178 - 0 0 0 0 0 0 0 FBtr0083385, FBtr0083383, FBtr0083382, FBtr0083381 +FBgn0000015:E008 FBgn0000015 E008 0 NA NA NA NA NA NA NA 3R 12768975 12769021 47 - 0 0 0 0 0 0 0 FBtr0083385, FBtr0083383, FBtr0083382, FBtr0083381 +FBgn0000015:E009 FBgn0000015 E009 0 NA NA NA NA NA NA NA 3R 12769504 12769991 488 - 0 0 0 0 0 0 0 FBtr0083383 +FBgn0000015:E010 FBgn0000015 E010 0 NA NA NA NA NA NA NA 3R 12785694 12786228 535 - 0 0 0 0 0 0 0 FBtr0083382 +FBgn0000015:E011 FBgn0000015 E011 0 NA NA NA NA NA NA NA 3R 12788881 12789667 787 - 0 0 0 0 0 0 0 FBtr0083381 +FBgn0000015:E012 FBgn0000015 E012 0 NA NA NA NA NA NA NA 3R 12797481 12797958 478 - 0 0 0 0 0 0 0 FBtr0083385 +FBgn0000022:E001 FBgn0000022 E001 0.0883366573889214 NA NA NA NA NA NA NA X 264064 264980 917 + 0 0 0 0 1 0 0 FBtr0070072 +FBgn0000024:E010 FBgn0000024 E010 0 NA NA NA NA NA NA NA 3R 9084025 9084147 123 - 0 0 0 0 0 0 0 FBtr0082780, FBtr0300486 +FBgn0000024:E012 FBgn0000024 E012 0 NA NA NA NA NA NA NA 3R 9085175 9085240 66 - 0 0 0 0 0 0 0 FBtr0300486 +FBgn0000028:E002 FBgn0000028 E002 0 NA NA NA NA NA NA NA X 15246367 15246389 23 - 0 0 0 0 0 0 0 FBtr0100328, FBtr0305191 +FBgn0000028:E003 FBgn0000028 E003 0 NA NA NA NA NA NA NA X 15246390 15247200 811 - 0 0 0 0 0 0 0 FBtr0305195, FBtr0305189, FBtr0305196, FBtr0074015, FBtr0305194, FBtr0100328, FBtr0290063, FBtr0305191, FBtr0305190, FBtr0305193, FBtr0305192, FBtr0290064, FBtr0100326 +FBgn0000028:E004 FBgn0000028 E004 0 NA NA NA NA NA NA NA X 15247258 15247415 158 - 0 0 0 0 0 0 0 FBtr0305195, FBtr0305189, FBtr0305196, FBtr0074015, FBtr0305194, FBtr0100328, FBtr0290063, FBtr0305191, FBtr0305190, FBtr0305193, FBtr0305192, FBtr0290064, FBtr0100326 +FBgn0000028:E005 FBgn0000028 E005 0 NA NA NA NA NA NA NA X 15247416 15247421 6 - 0 0 0 0 0 0 0 FBtr0074015, FBtr0305196, FBtr0305191, FBtr0305193, FBtr0305192 +FBgn0000028:E007 FBgn0000028 E007 0 NA NA NA NA NA NA NA X 15248569 15248709 141 - 0 0 0 0 0 0 0 FBtr0305195, FBtr0305189, FBtr0305196, FBtr0074015, FBtr0305194, FBtr0100328, FBtr0290063, FBtr0305191, FBtr0305190, FBtr0305193, FBtr0305192, FBtr0290064, FBtr0100326 +FBgn0000028:E008 FBgn0000028 E008 0 NA NA NA NA NA NA NA X 15248788 15248965 178 - 0 0 0 0 0 0 0 FBtr0305195, FBtr0305189, FBtr0305196, FBtr0074015, FBtr0305194, FBtr0100328, FBtr0290063, FBtr0305191, FBtr0305190, FBtr0305193, FBtr0305192, FBtr0290064, FBtr0100326 +FBgn0000028:E009 FBgn0000028 E009 0 NA NA NA NA NA NA NA X 15248966 15248986 21 - 0 0 0 0 0 0 0 FBtr0305195, FBtr0074015, FBtr0100328, FBtr0290064, FBtr0290063, FBtr0305191 +FBgn0000028:E010 FBgn0000028 E010 0 NA NA NA NA NA NA NA X 15265545 15265721 177 - 0 0 0 0 0 0 0 FBtr0305195, FBtr0305189, FBtr0305196, FBtr0074015, FBtr0305194, FBtr0100328, FBtr0290063, FBtr0305191, FBtr0305190, FBtr0305193, FBtr0305192, FBtr0290064, FBtr0100326 +FBgn0000028:E011 FBgn0000028 E011 0 NA NA NA NA NA NA NA X 15266185 15266241 57 - 0 0 0 0 0 0 0 FBtr0305195, FBtr0305189, FBtr0074015, FBtr0305194, FBtr0305196, FBtr0100328 +FBgn0000032:E001 FBgn0000032 E001 0 NA NA NA NA NA NA NA 3R 25816861 25816862 2 - 0 0 0 0 0 0 0 FBtr0085610 +FBgn0000036:E002 FBgn0000036 E002 0 NA NA NA NA NA NA NA 3R 20228937 20229232 296 - 0 0 0 0 0 0 0 FBtr0084619, FBtr0330310 +FBgn0000036:E003 FBgn0000036 E003 0 NA NA NA NA NA NA NA 3R 20230404 20230615 212 - 0 0 0 0 0 0 0 FBtr0084619, FBtr0330310 +FBgn0000036:E004 FBgn0000036 E004 0 NA NA NA NA NA NA NA 3R 20230691 20231151 461 - 0 0 0 0 0 0 0 FBtr0084619, FBtr0330310 +FBgn0000036:E005 FBgn0000036 E005 0 NA NA NA NA NA NA NA 3R 20233040 20233220 181 - 0 0 0 0 0 0 0 FBtr0084619, FBtr0330310 +FBgn0000036:E006 FBgn0000036 E006 0 NA NA NA NA NA NA NA 3R 20238230 20238339 110 - 0 0 0 0 0 0 0 FBtr0084619, FBtr0330310 +FBgn0000036:E007 FBgn0000036 E007 0 NA NA NA NA NA NA NA 3R 20240569 20240613 45 - 0 0 0 0 0 0 0 FBtr0084619, FBtr0330310 +FBgn0000036:E009 FBgn0000036 E009 0 NA NA NA NA NA NA NA 3R 20277617 20278355 739 - 0 0 0 0 0 0 0 FBtr0084619, FBtr0330310 +FBgn0000036:E010 FBgn0000036 E010 0 NA NA NA NA NA NA NA 3R 20282157 20282651 495 - 0 0 0 0 0 0 0 FBtr0084619, FBtr0330310 +FBgn0000037:E002 FBgn0000037 E002 0 NA NA NA NA NA NA NA 2R 20270713 20270763 51 - 0 0 0 0 0 0 0 FBtr0072368 +FBgn0000037:E003 FBgn0000037 E003 0 NA NA NA NA NA NA NA 2R 20270764 20270900 137 - 0 0 0 0 0 0 0 FBtr0072367, FBtr0072368 +FBgn0000037:E006 FBgn0000037 E006 0 NA NA NA NA NA NA NA 2R 20277121 20277235 115 - 0 0 0 0 0 0 0 FBtr0072367, FBtr0072368 +FBgn0000038:E001 FBgn0000038 E001 0 NA NA NA NA NA NA NA 3L 4429349 4429502 154 + 0 0 0 0 0 0 0 FBtr0073299, FBtr0073300 +FBgn0000038:E002 FBgn0000038 E002 0 NA NA NA NA NA NA NA 3L 4429566 4429715 150 + 0 0 0 0 0 0 0 FBtr0073299, FBtr0073300 +FBgn0000038:E003 FBgn0000038 E003 0 NA NA NA NA NA NA NA 3L 4429716 4430229 514 + 0 0 0 0 0 0 0 FBtr0073300 +FBgn0000038:E004 FBgn0000038 E004 0 NA NA NA NA NA NA NA 3L 4432386 4432522 137 + 0 0 0 0 0 0 0 FBtr0073299 +FBgn0000038:E005 FBgn0000038 E005 0 NA NA NA NA NA NA NA 3L 4433305 4433459 155 + 0 0 0 0 0 0 0 FBtr0073299 +FBgn0000038:E006 FBgn0000038 E006 0 NA NA NA NA NA NA NA 3L 4433615 4434059 445 + 0 0 0 0 0 0 0 FBtr0073299 +FBgn0000038:E007 FBgn0000038 E007 0 NA NA NA NA NA NA NA 3L 4434490 4435089 600 + 0 0 0 0 0 0 0 FBtr0073299 +FBgn0000038:E008 FBgn0000038 E008 0 NA NA NA NA NA NA NA 3L 4435175 4435993 819 + 0 0 0 0 0 0 0 FBtr0073299 +FBgn0000039:E001 FBgn0000039 E001 0 NA NA NA NA NA NA NA 3R 20311164 20311258 95 + 0 0 0 0 0 0 0 FBtr0084639 +FBgn0000039:E002 FBgn0000039 E002 0 NA NA NA NA NA NA NA 3R 20311259 20311561 303 + 0 0 0 0 0 0 0 FBtr0084639, FBtr0084640 +FBgn0000039:E003 FBgn0000039 E003 0 NA NA NA NA NA NA NA 3R 20311562 20311629 68 + 0 0 0 0 0 0 0 FBtr0084639 +FBgn0000039:E004 FBgn0000039 E004 0 NA NA NA NA NA NA NA 3R 20311630 20311922 293 + 0 0 0 0 0 0 0 FBtr0084639, FBtr0084640 +FBgn0000039:E005 FBgn0000039 E005 0 NA NA NA NA NA NA NA 3R 20312853 20313007 155 + 0 0 0 0 0 0 0 FBtr0084639, FBtr0084640 +FBgn0000039:E006 FBgn0000039 E006 0 NA NA NA NA NA NA NA 3R 20313145 20313325 181 + 0 0 0 0 0 0 0 FBtr0084639, FBtr0084640 +FBgn0000039:E007 FBgn0000039 E007 0 NA NA NA NA NA NA NA 3R 20314174 20314333 160 + 0 0 0 0 0 0 0 FBtr0084639, FBtr0084640 +FBgn0000039:E008 FBgn0000039 E008 0 NA NA NA NA NA NA NA 3R 20314503 20315088 586 + 0 0 0 0 0 0 0 FBtr0084639, FBtr0084640 +FBgn0000039:E009 FBgn0000039 E009 0.0883366573889214 NA NA NA NA NA NA NA 3R 20315321 20315522 202 + 0 0 0 0 1 0 0 FBtr0084639, FBtr0084640 +FBgn0000039:E010 FBgn0000039 E010 0 NA NA NA NA NA NA NA 3R 20316540 20316875 336 + 0 0 0 0 0 0 0 FBtr0084639, FBtr0084640 +FBgn0000045:E001 FBgn0000045 E001 0 NA NA NA NA NA NA NA 3L 21978310 21978348 39 + 0 0 0 0 0 0 0 FBtr0334090, FBtr0078478 +FBgn0000047:E001 FBgn0000047 E001 0 NA NA NA NA NA NA NA 3R 11265710 11265768 59 + 0 0 0 0 0 0 0 FBtr0083143 +FBgn0000061:E001 FBgn0000061 E001 0 NA NA NA NA NA NA NA 2L 378112 378481 370 + 0 0 0 0 0 0 0 FBtr0078053 +FBgn0000061:E003 FBgn0000061 E003 0 NA NA NA NA NA NA NA 2L 385701 385746 46 + 0 0 0 0 0 0 0 FBtr0078053 +FBgn0000071:E001 FBgn0000071 E001 0 NA NA NA NA NA NA NA 3R 2588315 2588718 404 + 0 0 0 0 0 0 0 FBtr0081618 +FBgn0000075:E001 FBgn0000075 E001 0 NA NA NA NA NA NA NA 2L 19110159 19110350 192 + 0 0 0 0 0 0 0 FBtr0081153 +FBgn0000075:E002 FBgn0000075 E002 0 NA NA NA NA NA NA NA 2L 19110412 19110646 235 + 0 0 0 0 0 0 0 FBtr0081153 +FBgn0000077:E001 FBgn0000077 E001 115.669685732003 NA NA NA NA NA NA NA X 9139948 9140185 238 - 179 85 89 167 196 70 92 FBtr0071331 +FBgn0000078:E001 FBgn0000078 E001 16.3910327521687 NA NA NA NA NA NA NA 2R 13012267 13013887 1621 + 10 11 11 24 30 16 15 FBtr0086983 +FBgn0000079:E001 FBgn0000079 E001 84.9770030139345 NA NA NA NA NA NA NA 2R 13006211 13007808 1598 - 44 51 53 78 132 115 99 FBtr0087004 +FBgn0000084:E002 FBgn0000084 E002 0 NA NA NA NA NA NA NA X 20065962 20065964 3 - 0 0 0 0 0 0 0 FBtr0301931 +FBgn0000099:E001 FBgn0000099 E001 0 NA NA NA NA NA NA NA 2R 1593707 1594728 1022 - 0 0 0 0 0 0 0 FBtr0300505, FBtr0086058, FBtr0086059 +FBgn0000099:E005 FBgn0000099 E005 0 NA NA NA NA NA NA NA 2R 1596431 1596604 174 - 0 0 0 0 0 0 0 FBtr0300505, FBtr0086058, FBtr0086059, FBtr0300504 +FBgn0000099:E006 FBgn0000099 E006 0 NA NA NA NA NA NA NA 2R 1596664 1596797 134 - 0 0 0 0 0 0 0 FBtr0086059 +FBgn0000099:E008 FBgn0000099 E008 0 NA NA NA NA NA NA NA 2R 1604294 1604554 261 - 0 0 0 0 0 0 0 FBtr0300505 +FBgn0000099:E009 FBgn0000099 E009 0 NA NA NA NA NA NA NA 2R 1604787 1605003 217 - 0 0 0 0 0 0 0 FBtr0086058, FBtr0300504 +FBgn0000099:E010 FBgn0000099 E010 0 NA NA NA NA NA NA NA 2R 1605060 1605268 209 - 0 0 0 0 0 0 0 FBtr0086058, FBtr0300504 +FBgn0000099:E011 FBgn0000099 E011 0 NA NA NA NA NA NA NA 2R 1605269 1605271 3 - 0 0 0 0 0 0 0 FBtr0086058 +FBgn0000099:E012 FBgn0000099 E012 0 NA NA NA NA NA NA NA 2R 1613326 1614335 1010 - 0 0 0 0 0 0 0 FBtr0086058, FBtr0300504 +FBgn0000114:E001 FBgn0000114 E001 0 NA NA NA NA NA NA NA 2L 12175004 12175420 417 + 0 0 0 0 0 0 0 FBtr0331998 +FBgn0000114:E003 FBgn0000114 E003 0 NA NA NA NA NA NA NA 2L 12205843 12206130 288 + 0 0 0 0 0 0 0 FBtr0331646, FBtr0080344 +FBgn0000114:E004 FBgn0000114 E004 0 NA NA NA NA NA NA NA 2L 12222197 12222337 141 + 0 0 0 0 0 0 0 FBtr0331647, FBtr0331645 +FBgn0000114:E007 FBgn0000114 E007 0 NA NA NA NA NA NA NA 2L 12271591 12272084 494 + 0 0 0 0 0 0 0 FBtr0300567, FBtr0331648, FBtr0331646, FBtr0331647, FBtr0331644, FBtr0331645, FBtr0080344, FBtr0080345, FBtr0331998 +FBgn0000114:E008 FBgn0000114 E008 0 NA NA NA NA NA NA NA 2L 12278837 12278919 83 + 0 0 0 0 0 0 0 FBtr0300567, FBtr0331648, FBtr0331646, FBtr0331647, FBtr0331644, FBtr0331645, FBtr0080344, FBtr0080345, FBtr0331998 +FBgn0000114:E009 FBgn0000114 E009 0 NA NA NA NA NA NA NA 2L 12282514 12282562 49 + 0 0 0 0 0 0 0 FBtr0300567, FBtr0331648, FBtr0331646, FBtr0331647, FBtr0331644, FBtr0331645, FBtr0080344, FBtr0080345, FBtr0331998 +FBgn0000114:E013 FBgn0000114 E013 0 NA NA NA NA NA NA NA 2L 12298814 12299111 298 + 0 0 0 0 0 0 0 FBtr0300567, FBtr0331648, FBtr0331646, FBtr0331647, FBtr0331644, FBtr0331645, FBtr0080347, FBtr0080344, FBtr0080345, FBtr0331998 +FBgn0000114:E016 FBgn0000114 E016 0 NA NA NA NA NA NA NA 2L 12300610 12300621 12 + 0 0 0 0 0 0 0 FBtr0331644 +FBgn0000114:E017 FBgn0000114 E017 0 NA NA NA NA NA NA NA 2L 12304446 12304595 150 + 0 0 0 0 0 0 0 FBtr0300567, FBtr0331648, FBtr0331646, FBtr0331647, FBtr0331644, FBtr0331645, FBtr0080347, FBtr0080344, FBtr0080345, FBtr0331998 +FBgn0000114:E018 FBgn0000114 E018 0 NA NA NA NA NA NA NA 2L 12310682 12311093 412 + 0 0 0 0 0 0 0 FBtr0300567, FBtr0331648, FBtr0331646, FBtr0331647, FBtr0331644, FBtr0331645, FBtr0080347, FBtr0080344, FBtr0080345, FBtr0331998 +FBgn0000114:E019 FBgn0000114 E019 0 NA NA NA NA NA NA NA 2L 12311094 12311104 11 + 0 0 0 0 0 0 0 FBtr0300567, FBtr0331648, FBtr0331646, FBtr0331645, FBtr0080347, FBtr0331998 +FBgn0000116:E007 FBgn0000116 E007 0 NA NA NA NA NA NA NA 3L 9055912 9056048 137 - 0 0 0 0 0 0 0 FBtr0076544 +FBgn0000120:E001 FBgn0000120 E001 0 NA NA NA NA NA NA NA 2L 18078269 18078496 228 + 0 0 0 0 0 0 0 FBtr0307350, FBtr0081030 +FBgn0000120:E002 FBgn0000120 E002 0 NA NA NA NA NA NA NA 2L 18078916 18079723 808 + 0 0 0 0 0 0 0 FBtr0307350, FBtr0081030 +FBgn0000120:E003 FBgn0000120 E003 0 NA NA NA NA NA NA NA 2L 18079957 18080086 130 + 0 0 0 0 0 0 0 FBtr0307350, FBtr0081030 +FBgn0000120:E004 FBgn0000120 E004 0 NA NA NA NA NA NA NA 2L 18080147 18080415 269 + 0 0 0 0 0 0 0 FBtr0307350, FBtr0081030 +FBgn0000137:E001 FBgn0000137 E001 0 NA NA NA NA NA NA NA X 354533 357209 2677 + 0 0 0 0 0 0 0 FBtr0070075
--- a/test-data/flattened.gtf Sun Jan 29 06:59:35 2017 -0500 +++ b/test-data/flattened.gtf Sun Jan 28 04:04:39 2018 -0500 @@ -1,257 +1,257 @@ 4 dexseq_prepare_annotation.py aggregate_gene 68336 77667 . - . gene_id "FBgn0004859" -4 dexseq_prepare_annotation.py exonic_part 68336 71088 . - . transcripts "FBtr0308074+FBtr0089178+FBtr0306168"; exonic_part_number "001"; gene_id "FBgn0004859" -4 dexseq_prepare_annotation.py exonic_part 71142 71239 . - . transcripts "FBtr0308074+FBtr0089178+FBtr0306168"; exonic_part_number "002"; gene_id "FBgn0004859" -4 dexseq_prepare_annotation.py exonic_part 71240 71306 . - . transcripts "FBtr0306168+FBtr0089178"; exonic_part_number "003"; gene_id "FBgn0004859" -4 dexseq_prepare_annotation.py exonic_part 71371 71883 . - . transcripts "FBtr0308074+FBtr0089178+FBtr0306168"; exonic_part_number "004"; gene_id "FBgn0004859" -4 dexseq_prepare_annotation.py exonic_part 71940 72580 . - . transcripts "FBtr0308074+FBtr0089178+FBtr0306168"; exonic_part_number "005"; gene_id "FBgn0004859" -4 dexseq_prepare_annotation.py exonic_part 72643 73010 . - . transcripts "FBtr0308074+FBtr0089178+FBtr0306168"; exonic_part_number "006"; gene_id "FBgn0004859" -4 dexseq_prepare_annotation.py exonic_part 76457 76916 . - . transcripts "FBtr0308074+FBtr0089178"; exonic_part_number "007"; gene_id "FBgn0004859" -4 dexseq_prepare_annotation.py exonic_part 76917 76957 . - . transcripts "FBtr0308074+FBtr0089178+FBtr0306168"; exonic_part_number "008"; gene_id "FBgn0004859" -4 dexseq_prepare_annotation.py exonic_part 76958 77667 . - . transcripts "FBtr0306168"; exonic_part_number "009"; gene_id "FBgn0004859" +4 dexseq_prepare_annotation.py exonic_part 68336 71088 . - . transcripts "FBtr0308074+FBtr0089178+FBtr0306168"; gene_id "FBgn0004859"; exonic_part_number "001" +4 dexseq_prepare_annotation.py exonic_part 71142 71239 . - . transcripts "FBtr0308074+FBtr0089178+FBtr0306168"; gene_id "FBgn0004859"; exonic_part_number "002" +4 dexseq_prepare_annotation.py exonic_part 71240 71306 . - . transcripts "FBtr0306168+FBtr0089178"; gene_id "FBgn0004859"; exonic_part_number "003" +4 dexseq_prepare_annotation.py exonic_part 71371 71883 . - . transcripts "FBtr0308074+FBtr0089178+FBtr0306168"; gene_id "FBgn0004859"; exonic_part_number "004" +4 dexseq_prepare_annotation.py exonic_part 71940 72580 . - . transcripts "FBtr0308074+FBtr0089178+FBtr0306168"; gene_id "FBgn0004859"; exonic_part_number "005" +4 dexseq_prepare_annotation.py exonic_part 72643 73010 . - . transcripts "FBtr0308074+FBtr0089178+FBtr0306168"; gene_id "FBgn0004859"; exonic_part_number "006" +4 dexseq_prepare_annotation.py exonic_part 76457 76916 . - . transcripts "FBtr0308074+FBtr0089178"; gene_id "FBgn0004859"; exonic_part_number "007" +4 dexseq_prepare_annotation.py exonic_part 76917 76957 . - . transcripts "FBtr0308074+FBtr0089178+FBtr0306168"; gene_id "FBgn0004859"; exonic_part_number "008" +4 dexseq_prepare_annotation.py exonic_part 76958 77667 . - . transcripts "FBtr0306168"; gene_id "FBgn0004859"; exonic_part_number "009" 4 dexseq_prepare_annotation.py aggregate_gene 137015 150380 . - . gene_id "FBgn0011747" -4 dexseq_prepare_annotation.py exonic_part 137015 137256 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; exonic_part_number "001"; gene_id "FBgn0011747" -4 dexseq_prepare_annotation.py exonic_part 137312 139127 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; exonic_part_number "002"; gene_id "FBgn0011747" -4 dexseq_prepare_annotation.py exonic_part 139181 139405 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; exonic_part_number "003"; gene_id "FBgn0011747" -4 dexseq_prepare_annotation.py exonic_part 139464 139557 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; exonic_part_number "004"; gene_id "FBgn0011747" -4 dexseq_prepare_annotation.py exonic_part 140514 140838 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; exonic_part_number "005"; gene_id "FBgn0011747" -4 dexseq_prepare_annotation.py exonic_part 141484 142425 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; exonic_part_number "006"; gene_id "FBgn0011747" -4 dexseq_prepare_annotation.py exonic_part 142479 142582 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; exonic_part_number "007"; gene_id "FBgn0011747" -4 dexseq_prepare_annotation.py exonic_part 142935 144048 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; exonic_part_number "008"; gene_id "FBgn0011747" -4 dexseq_prepare_annotation.py exonic_part 144411 144518 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; exonic_part_number "009"; gene_id "FBgn0011747" -4 dexseq_prepare_annotation.py exonic_part 149948 150068 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; exonic_part_number "010"; gene_id "FBgn0011747" -4 dexseq_prepare_annotation.py exonic_part 150069 150078 . - . transcripts "FBtr0089173"; exonic_part_number "011"; gene_id "FBgn0011747" -4 dexseq_prepare_annotation.py exonic_part 150181 150353 . - . transcripts "FBtr0089172"; exonic_part_number "012"; gene_id "FBgn0011747" -4 dexseq_prepare_annotation.py exonic_part 150354 150380 . - . transcripts "FBtr0089172+FBtr0089171"; exonic_part_number "013"; gene_id "FBgn0011747" +4 dexseq_prepare_annotation.py exonic_part 137015 137256 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; gene_id "FBgn0011747"; exonic_part_number "001" +4 dexseq_prepare_annotation.py exonic_part 137312 139127 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; gene_id "FBgn0011747"; exonic_part_number "002" +4 dexseq_prepare_annotation.py exonic_part 139181 139405 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; gene_id "FBgn0011747"; exonic_part_number "003" +4 dexseq_prepare_annotation.py exonic_part 139464 139557 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; gene_id "FBgn0011747"; exonic_part_number "004" +4 dexseq_prepare_annotation.py exonic_part 140514 140838 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; gene_id "FBgn0011747"; exonic_part_number "005" +4 dexseq_prepare_annotation.py exonic_part 141484 142425 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; gene_id "FBgn0011747"; exonic_part_number "006" +4 dexseq_prepare_annotation.py exonic_part 142479 142582 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; gene_id "FBgn0011747"; exonic_part_number "007" +4 dexseq_prepare_annotation.py exonic_part 142935 144048 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; gene_id "FBgn0011747"; exonic_part_number "008" +4 dexseq_prepare_annotation.py exonic_part 144411 144518 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; gene_id "FBgn0011747"; exonic_part_number "009" +4 dexseq_prepare_annotation.py exonic_part 149948 150068 . - . transcripts "FBtr0089172+FBtr0089173+FBtr0089171"; gene_id "FBgn0011747"; exonic_part_number "010" +4 dexseq_prepare_annotation.py exonic_part 150069 150078 . - . transcripts "FBtr0089173"; gene_id "FBgn0011747"; exonic_part_number "011" +4 dexseq_prepare_annotation.py exonic_part 150181 150353 . - . transcripts "FBtr0089172"; gene_id "FBgn0011747"; exonic_part_number "012" +4 dexseq_prepare_annotation.py exonic_part 150354 150380 . - . transcripts "FBtr0089172+FBtr0089171"; gene_id "FBgn0011747"; exonic_part_number "013" 4 dexseq_prepare_annotation.py aggregate_gene 522436 560418 . + . gene_id "FBgn0004607" -4 dexseq_prepare_annotation.py exonic_part 522436 522483 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; exonic_part_number "001"; gene_id "FBgn0004607" -4 dexseq_prepare_annotation.py exonic_part 524477 524764 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; exonic_part_number "002"; gene_id "FBgn0004607" -4 dexseq_prepare_annotation.py exonic_part 536208 536257 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; exonic_part_number "003"; gene_id "FBgn0004607" -4 dexseq_prepare_annotation.py exonic_part 542099 543730 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; exonic_part_number "004"; gene_id "FBgn0004607" -4 dexseq_prepare_annotation.py exonic_part 544957 545138 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; exonic_part_number "005"; gene_id "FBgn0004607" -4 dexseq_prepare_annotation.py exonic_part 545530 547146 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; exonic_part_number "006"; gene_id "FBgn0004607" -4 dexseq_prepare_annotation.py exonic_part 550319 551719 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; exonic_part_number "007"; gene_id "FBgn0004607" -4 dexseq_prepare_annotation.py exonic_part 551782 551784 . + . transcripts "FBtr0332913+FBtr0089070"; exonic_part_number "008"; gene_id "FBgn0004607" -4 dexseq_prepare_annotation.py exonic_part 551785 552005 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; exonic_part_number "009"; gene_id "FBgn0004607" -4 dexseq_prepare_annotation.py exonic_part 552062 552409 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; exonic_part_number "010"; gene_id "FBgn0004607" -4 dexseq_prepare_annotation.py exonic_part 553409 553411 . + . transcripts "FBtr0332913+FBtr0089070"; exonic_part_number "011"; gene_id "FBgn0004607" -4 dexseq_prepare_annotation.py exonic_part 553412 553552 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; exonic_part_number "012"; gene_id "FBgn0004607" -4 dexseq_prepare_annotation.py exonic_part 553609 556506 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; exonic_part_number "013"; gene_id "FBgn0004607" -4 dexseq_prepare_annotation.py exonic_part 557592 557701 . + . transcripts "FBtr0332913"; exonic_part_number "014"; gene_id "FBgn0004607" -4 dexseq_prepare_annotation.py exonic_part 557801 558386 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; exonic_part_number "015"; gene_id "FBgn0004607" -4 dexseq_prepare_annotation.py exonic_part 558387 558999 . + . transcripts "FBtr0332913"; exonic_part_number "016"; gene_id "FBgn0004607" -4 dexseq_prepare_annotation.py exonic_part 559164 559230 . + . transcripts "FBtr0089070+FBtr0307167"; exonic_part_number "017"; gene_id "FBgn0004607" -4 dexseq_prepare_annotation.py exonic_part 559285 560418 . + . transcripts "FBtr0089070+FBtr0307167"; exonic_part_number "018"; gene_id "FBgn0004607" +4 dexseq_prepare_annotation.py exonic_part 522436 522483 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; gene_id "FBgn0004607"; exonic_part_number "001" +4 dexseq_prepare_annotation.py exonic_part 524477 524764 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; gene_id "FBgn0004607"; exonic_part_number "002" +4 dexseq_prepare_annotation.py exonic_part 536208 536257 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; gene_id "FBgn0004607"; exonic_part_number "003" +4 dexseq_prepare_annotation.py exonic_part 542099 543730 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; gene_id "FBgn0004607"; exonic_part_number "004" +4 dexseq_prepare_annotation.py exonic_part 544957 545138 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; gene_id "FBgn0004607"; exonic_part_number "005" +4 dexseq_prepare_annotation.py exonic_part 545530 547146 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; gene_id "FBgn0004607"; exonic_part_number "006" +4 dexseq_prepare_annotation.py exonic_part 550319 551719 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; gene_id "FBgn0004607"; exonic_part_number "007" +4 dexseq_prepare_annotation.py exonic_part 551782 551784 . + . transcripts "FBtr0332913+FBtr0089070"; gene_id "FBgn0004607"; exonic_part_number "008" +4 dexseq_prepare_annotation.py exonic_part 551785 552005 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; gene_id "FBgn0004607"; exonic_part_number "009" +4 dexseq_prepare_annotation.py exonic_part 552062 552409 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; gene_id "FBgn0004607"; exonic_part_number "010" +4 dexseq_prepare_annotation.py exonic_part 553409 553411 . + . transcripts "FBtr0332913+FBtr0089070"; gene_id "FBgn0004607"; exonic_part_number "011" +4 dexseq_prepare_annotation.py exonic_part 553412 553552 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; gene_id "FBgn0004607"; exonic_part_number "012" +4 dexseq_prepare_annotation.py exonic_part 553609 556506 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; gene_id "FBgn0004607"; exonic_part_number "013" +4 dexseq_prepare_annotation.py exonic_part 557592 557701 . + . transcripts "FBtr0332913"; gene_id "FBgn0004607"; exonic_part_number "014" +4 dexseq_prepare_annotation.py exonic_part 557801 558386 . + . transcripts "FBtr0332913+FBtr0089070+FBtr0307167"; gene_id "FBgn0004607"; exonic_part_number "015" +4 dexseq_prepare_annotation.py exonic_part 558387 558999 . + . transcripts "FBtr0332913"; gene_id "FBgn0004607"; exonic_part_number "016" +4 dexseq_prepare_annotation.py exonic_part 559164 559230 . + . transcripts "FBtr0089070+FBtr0307167"; gene_id "FBgn0004607"; exonic_part_number "017" +4 dexseq_prepare_annotation.py exonic_part 559285 560418 . + . transcripts "FBtr0089070+FBtr0307167"; gene_id "FBgn0004607"; exonic_part_number "018" 4 dexseq_prepare_annotation.py aggregate_gene 718315 741787 . + . gene_id "FBgn0005558" -4 dexseq_prepare_annotation.py exonic_part 718315 718509 . + . transcripts "FBtr0089235"; exonic_part_number "001"; gene_id "FBgn0005558" -4 dexseq_prepare_annotation.py exonic_part 725703 725899 . + . transcripts "FBtr0100396+FBtr0089236"; exonic_part_number "002"; gene_id "FBgn0005558" -4 dexseq_prepare_annotation.py exonic_part 728055 728117 . + . transcripts "FBtr0100395"; exonic_part_number "003"; gene_id "FBgn0005558" -4 dexseq_prepare_annotation.py exonic_part 728118 728297 . + . transcripts "FBtr0100396+FBtr0100395"; exonic_part_number "004"; gene_id "FBgn0005558" -4 dexseq_prepare_annotation.py exonic_part 731543 731708 . + . transcripts "FBtr0089235+FBtr0100395+FBtr0100396+FBtr0089236"; exonic_part_number "005"; gene_id "FBgn0005558" -4 dexseq_prepare_annotation.py exonic_part 733119 733299 . + . transcripts "FBtr0089235+FBtr0100395+FBtr0100396+FBtr0089236"; exonic_part_number "006"; gene_id "FBgn0005558" -4 dexseq_prepare_annotation.py exonic_part 734484 735138 . + . transcripts "FBtr0089235+FBtr0100395+FBtr0100396+FBtr0089236"; exonic_part_number "007"; gene_id "FBgn0005558" -4 dexseq_prepare_annotation.py exonic_part 737753 737926 . + . transcripts "FBtr0089235+FBtr0100395+FBtr0100396+FBtr0089236"; exonic_part_number "008"; gene_id "FBgn0005558" -4 dexseq_prepare_annotation.py exonic_part 738280 738555 . + . transcripts "FBtr0089235+FBtr0100395+FBtr0100396+FBtr0089236"; exonic_part_number "009"; gene_id "FBgn0005558" -4 dexseq_prepare_annotation.py exonic_part 739900 740254 . + . transcripts "FBtr0089235+FBtr0100395+FBtr0100396+FBtr0089236"; exonic_part_number "010"; gene_id "FBgn0005558" -4 dexseq_prepare_annotation.py exonic_part 740948 741787 . + . transcripts "FBtr0089235+FBtr0100395+FBtr0100396+FBtr0089236"; exonic_part_number "011"; gene_id "FBgn0005558" +4 dexseq_prepare_annotation.py exonic_part 718315 718509 . + . transcripts "FBtr0089235"; gene_id "FBgn0005558"; exonic_part_number "001" +4 dexseq_prepare_annotation.py exonic_part 725703 725899 . + . transcripts "FBtr0089236+FBtr0100396"; gene_id "FBgn0005558"; exonic_part_number "002" +4 dexseq_prepare_annotation.py exonic_part 728055 728117 . + . transcripts "FBtr0100395"; gene_id "FBgn0005558"; exonic_part_number "003" +4 dexseq_prepare_annotation.py exonic_part 728118 728297 . + . transcripts "FBtr0100396+FBtr0100395"; gene_id "FBgn0005558"; exonic_part_number "004" +4 dexseq_prepare_annotation.py exonic_part 731543 731708 . + . transcripts "FBtr0089235+FBtr0089236+FBtr0100396+FBtr0100395"; gene_id "FBgn0005558"; exonic_part_number "005" +4 dexseq_prepare_annotation.py exonic_part 733119 733299 . + . transcripts "FBtr0089235+FBtr0089236+FBtr0100396+FBtr0100395"; gene_id "FBgn0005558"; exonic_part_number "006" +4 dexseq_prepare_annotation.py exonic_part 734484 735138 . + . transcripts "FBtr0089235+FBtr0089236+FBtr0100396+FBtr0100395"; gene_id "FBgn0005558"; exonic_part_number "007" +4 dexseq_prepare_annotation.py exonic_part 737753 737926 . + . transcripts "FBtr0089235+FBtr0089236+FBtr0100396+FBtr0100395"; gene_id "FBgn0005558"; exonic_part_number "008" +4 dexseq_prepare_annotation.py exonic_part 738280 738555 . + . transcripts "FBtr0089235+FBtr0089236+FBtr0100396+FBtr0100395"; gene_id "FBgn0005558"; exonic_part_number "009" +4 dexseq_prepare_annotation.py exonic_part 739900 740254 . + . transcripts "FBtr0089235+FBtr0089236+FBtr0100396+FBtr0100395"; gene_id "FBgn0005558"; exonic_part_number "010" +4 dexseq_prepare_annotation.py exonic_part 740948 741787 . + . transcripts "FBtr0089235+FBtr0089236+FBtr0100396+FBtr0100395"; gene_id "FBgn0005558"; exonic_part_number "011" 4 dexseq_prepare_annotation.py aggregate_gene 745030 796707 . + . gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 745030 745117 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "001"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 746295 746655 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "002"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 747288 747309 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "003"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 747558 747588 . + . transcripts "FBtr0301341"; exonic_part_number "004"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 748087 748249 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "005"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 748730 748871 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "006"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 749299 749440 . + . transcripts "FBtr0301340+FBtr0301341"; exonic_part_number "007"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 749628 749828 . + . transcripts "FBtr0301340+FBtr0301341"; exonic_part_number "008"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 749900 750201 . + . transcripts "FBtr0301340+FBtr0301341"; exonic_part_number "009"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 751403 751626 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "010"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 751689 752091 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "011"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 752186 752859 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "012"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 753843 754190 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "013"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 754546 754590 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "014"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 754905 755027 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "015"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 755104 755163 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "016"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 755340 755438 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "017"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 756141 756449 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "018"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 756531 756656 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "019"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 756775 756813 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "020"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 756965 757141 . + . transcripts "FBtr0301340"; exonic_part_number "021"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 757445 757672 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "022"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 758362 758535 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "023"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 759579 759614 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "024"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 760575 760607 . + . transcripts "FBtr0301340"; exonic_part_number "025"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 763029 763176 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "026"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 763414 763787 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "027"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 765792 765917 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; exonic_part_number "028"; gene_id "FBgn0005666" -4 dexseq_prepare_annotation.py exonic_part 765998 766697 . + . transcripts "FBtr0301340+FBtr0301341+FBtr0089793"; 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gene_id "FBgn0005666"; exonic_part_number "042" +4 dexseq_prepare_annotation.py exonic_part 793029 793085 . + . transcripts "FBtr0089793+FBtr0301340+FBtr0301341"; gene_id "FBgn0005666"; exonic_part_number "043" +4 dexseq_prepare_annotation.py exonic_part 794643 794743 . + . transcripts "FBtr0089793+FBtr0301340+FBtr0301341"; gene_id "FBgn0005666"; exonic_part_number "044" +4 dexseq_prepare_annotation.py exonic_part 794811 794937 . + . transcripts "FBtr0089793+FBtr0301340+FBtr0301341"; gene_id "FBgn0005666"; exonic_part_number "045" +4 dexseq_prepare_annotation.py exonic_part 795003 795305 . + . transcripts "FBtr0089793+FBtr0301340+FBtr0301341"; gene_id "FBgn0005666"; exonic_part_number "046" +4 dexseq_prepare_annotation.py exonic_part 795541 796707 . + . transcripts "FBtr0089793+FBtr0301340+FBtr0301341"; gene_id "FBgn0005666"; exonic_part_number "047" 4 dexseq_prepare_annotation.py aggregate_gene 1052110 1055183 . + . gene_id "FBgn0010217" -4 dexseq_prepare_annotation.py exonic_part 1052110 1052368 . + . transcripts "FBtr0333672"; exonic_part_number "001"; gene_id "FBgn0010217" -4 dexseq_prepare_annotation.py exonic_part 1052429 1052489 . + . transcripts "FBtr0333672"; exonic_part_number "002"; gene_id "FBgn0010217" -4 dexseq_prepare_annotation.py exonic_part 1052490 1052579 . + . transcripts "FBtr0089187+FBtr0089186+FBtr0333672"; exonic_part_number "003"; gene_id "FBgn0010217" -4 dexseq_prepare_annotation.py exonic_part 1053515 1053532 . + . transcripts "FBtr0333672"; exonic_part_number "004"; gene_id "FBgn0010217" -4 dexseq_prepare_annotation.py exonic_part 1053533 1053844 . + . transcripts "FBtr0089187+FBtr0089186+FBtr0333672"; exonic_part_number "005"; gene_id "FBgn0010217" -4 dexseq_prepare_annotation.py exonic_part 1053845 1053897 . + . transcripts "FBtr0089187"; exonic_part_number "006"; gene_id "FBgn0010217" -4 dexseq_prepare_annotation.py exonic_part 1053898 1055183 . + . transcripts "FBtr0089187+FBtr0089186+FBtr0333672"; exonic_part_number "007"; gene_id "FBgn0010217" +4 dexseq_prepare_annotation.py exonic_part 1052110 1052368 . + . transcripts "FBtr0333672"; 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exonic_part_number "001"; gene_id "FBgn0011642" -4 dexseq_prepare_annotation.py exonic_part 1078259 1078263 . - . transcripts "FBtr0309884+FBtr0309883+FBtr0309882+FBtr0089216+FBtr0089215+FBtr0089214+FBtr0089213+FBtr0089212+FBtr0089211+FBtr0089210"; exonic_part_number "002"; gene_id "FBgn0011642" -4 dexseq_prepare_annotation.py exonic_part 1078264 1078379 . - . transcripts "FBtr0309885+FBtr0309884+FBtr0309883+FBtr0309882+FBtr0089216+FBtr0089215+FBtr0089214+FBtr0089213+FBtr0089212+FBtr0089211+FBtr0089210"; exonic_part_number "003"; gene_id "FBgn0011642" -4 dexseq_prepare_annotation.py exonic_part 1078433 1078665 . - . transcripts "FBtr0309885+FBtr0309884+FBtr0309883+FBtr0309882+FBtr0089216+FBtr0089215+FBtr0089214+FBtr0089213+FBtr0089212+FBtr0089211+FBtr0089210"; exonic_part_number "004"; gene_id "FBgn0011642" -4 dexseq_prepare_annotation.py exonic_part 1078666 1078777 . - . transcripts "FBtr0309885+FBtr0309884+FBtr0309882+FBtr0089216+FBtr0089215+FBtr0089214+FBtr0089213+FBtr0089212+FBtr0089211+FBtr0089210"; exonic_part_number "005"; gene_id "FBgn0011642" -4 dexseq_prepare_annotation.py exonic_part 1078778 1078781 . - . transcripts "FBtr0309885+FBtr0309882+FBtr0089216+FBtr0089215+FBtr0089214+FBtr0089213+FBtr0089212+FBtr0089211+FBtr0089210"; exonic_part_number "006"; gene_id "FBgn0011642" -4 dexseq_prepare_annotation.py exonic_part 1078836 1079130 . - . transcripts "FBtr0309885+FBtr0309884+FBtr0309883+FBtr0309882+FBtr0089216+FBtr0089215+FBtr0089214+FBtr0089213+FBtr0089212+FBtr0089211+FBtr0089210"; exonic_part_number "007"; gene_id "FBgn0011642" -4 dexseq_prepare_annotation.py exonic_part 1079727 1079914 . - . transcripts "FBtr0309885+FBtr0309884+FBtr0309883+FBtr0309882+FBtr0089216+FBtr0089215+FBtr0089214+FBtr0089213+FBtr0089212+FBtr0089211+FBtr0089210"; exonic_part_number "008"; gene_id "FBgn0011642" -4 dexseq_prepare_annotation.py exonic_part 1079915 1079958 . - . transcripts "FBtr0309885+FBtr0309884+FBtr0309882+FBtr0089216+FBtr0089214+FBtr0089212+FBtr0089211"; exonic_part_number "009"; gene_id "FBgn0011642" -4 dexseq_prepare_annotation.py exonic_part 1079959 1079977 . - . transcripts "FBtr0309885+FBtr0309882+FBtr0089216+FBtr0089214+FBtr0089212+FBtr0089211"; exonic_part_number "010"; gene_id "FBgn0011642" -4 dexseq_prepare_annotation.py exonic_part 1080045 1080462 . - . transcripts "FBtr0309885+FBtr0309884+FBtr0309883+FBtr0309882+FBtr0089216+FBtr0089215+FBtr0089214+FBtr0089213+FBtr0089212+FBtr0089211+FBtr0089210"; exonic_part_number "011"; gene_id "FBgn0011642" -4 dexseq_prepare_annotation.py exonic_part 1081039 1081260 . - . transcripts "FBtr0309885+FBtr0309884+FBtr0309883+FBtr0089216+FBtr0089215+FBtr0089213+FBtr0089212+FBtr0089211+FBtr0089210"; exonic_part_number "012"; gene_id "FBgn0011642" -4 dexseq_prepare_annotation.py exonic_part 1081261 1081279 . - . transcripts "FBtr0309885+FBtr0089216+FBtr0089215+FBtr0089212+FBtr0089211"; exonic_part_number "013"; gene_id "FBgn0011642" -4 dexseq_prepare_annotation.py exonic_part 1081280 1081285 . - . transcripts "FBtr0089215+FBtr0089212"; exonic_part_number "014"; gene_id "FBgn0011642" -4 dexseq_prepare_annotation.py exonic_part 1081365 1081366 . - . transcripts "FBtr0089216+FBtr0089215+FBtr0089213"; exonic_part_number "015"; gene_id "FBgn0011642" -4 dexseq_prepare_annotation.py exonic_part 1081367 1081398 . - . transcripts "FBtr0309885+FBtr0309884+FBtr0089216+FBtr0089215+FBtr0089213+FBtr0089212+FBtr0089211+FBtr0089210"; exonic_part_number "016"; gene_id "FBgn0011642" -4 dexseq_prepare_annotation.py exonic_part 1081399 1081512 . - . transcripts "FBtr0309885+FBtr0309884+FBtr0309883+FBtr0089216+FBtr0089215+FBtr0089214+FBtr0089213+FBtr0089212+FBtr0089211+FBtr0089210"; exonic_part_number "017"; gene_id "FBgn0011642" -4 dexseq_prepare_annotation.py exonic_part 1081513 1081542 . - . transcripts "FBtr0309885+FBtr0309884+FBtr0309883+FBtr0089216+FBtr0089215+FBtr0089213+FBtr0089212+FBtr0089211+FBtr0089210"; exonic_part_number "018"; gene_id "FBgn0011642" -4 dexseq_prepare_annotation.py exonic_part 1084871 1084936 . - . transcripts "FBtr0309882"; exonic_part_number "019"; gene_id "FBgn0011642" +4 dexseq_prepare_annotation.py exonic_part 1077991 1078198 . - . transcripts "FBtr0309885+FBtr0089213+FBtr0309882+FBtr0089210+FBtr0309884+FBtr0089214+FBtr0089216+FBtr0309883+FBtr0089211+FBtr0089215+FBtr0089212"; gene_id "FBgn0011642"; exonic_part_number "001" +4 dexseq_prepare_annotation.py exonic_part 1078259 1078263 . - . transcripts "FBtr0089213+FBtr0309882+FBtr0089210+FBtr0309884+FBtr0089214+FBtr0089216+FBtr0309883+FBtr0089211+FBtr0089215+FBtr0089212"; gene_id "FBgn0011642"; exonic_part_number "002" +4 dexseq_prepare_annotation.py exonic_part 1078264 1078379 . - . transcripts "FBtr0309885+FBtr0089213+FBtr0309882+FBtr0089210+FBtr0309884+FBtr0089214+FBtr0089216+FBtr0309883+FBtr0089211+FBtr0089215+FBtr0089212"; gene_id "FBgn0011642"; exonic_part_number "003" +4 dexseq_prepare_annotation.py exonic_part 1078433 1078665 . - . transcripts "FBtr0309885+FBtr0089213+FBtr0309882+FBtr0089210+FBtr0309884+FBtr0089214+FBtr0089216+FBtr0309883+FBtr0089211+FBtr0089215+FBtr0089212"; gene_id "FBgn0011642"; exonic_part_number "004" +4 dexseq_prepare_annotation.py exonic_part 1078666 1078777 . - . transcripts "FBtr0309885+FBtr0089213+FBtr0309882+FBtr0089210+FBtr0309884+FBtr0089214+FBtr0089216+FBtr0089211+FBtr0089215+FBtr0089212"; gene_id "FBgn0011642"; exonic_part_number "005" +4 dexseq_prepare_annotation.py exonic_part 1078778 1078781 . - . transcripts "FBtr0309885+FBtr0089213+FBtr0309882+FBtr0089210+FBtr0089214+FBtr0089216+FBtr0089211+FBtr0089215+FBtr0089212"; gene_id "FBgn0011642"; exonic_part_number "006" +4 dexseq_prepare_annotation.py exonic_part 1078836 1079130 . - . transcripts "FBtr0309885+FBtr0089213+FBtr0309882+FBtr0089210+FBtr0309884+FBtr0089214+FBtr0089216+FBtr0309883+FBtr0089211+FBtr0089215+FBtr0089212"; gene_id "FBgn0011642"; exonic_part_number "007" +4 dexseq_prepare_annotation.py exonic_part 1079727 1079914 . - . transcripts "FBtr0309885+FBtr0089213+FBtr0309882+FBtr0089210+FBtr0309884+FBtr0089214+FBtr0089216+FBtr0309883+FBtr0089211+FBtr0089215+FBtr0089212"; gene_id "FBgn0011642"; exonic_part_number "008" +4 dexseq_prepare_annotation.py exonic_part 1079915 1079958 . - . transcripts "FBtr0309885+FBtr0309882+FBtr0309884+FBtr0089214+FBtr0089216+FBtr0089211+FBtr0089212"; gene_id "FBgn0011642"; exonic_part_number "009" +4 dexseq_prepare_annotation.py exonic_part 1079959 1079977 . - . transcripts "FBtr0309885+FBtr0309882+FBtr0089214+FBtr0089216+FBtr0089211+FBtr0089212"; gene_id "FBgn0011642"; exonic_part_number "010" +4 dexseq_prepare_annotation.py exonic_part 1080045 1080462 . - . transcripts "FBtr0309885+FBtr0089213+FBtr0309882+FBtr0089210+FBtr0309884+FBtr0089214+FBtr0089216+FBtr0309883+FBtr0089211+FBtr0089215+FBtr0089212"; gene_id "FBgn0011642"; exonic_part_number "011" +4 dexseq_prepare_annotation.py exonic_part 1081039 1081260 . - . transcripts "FBtr0309885+FBtr0089213+FBtr0089210+FBtr0309884+FBtr0089216+FBtr0309883+FBtr0089211+FBtr0089215+FBtr0089212"; gene_id "FBgn0011642"; exonic_part_number "012" +4 dexseq_prepare_annotation.py exonic_part 1081261 1081279 . - . transcripts "FBtr0089216+FBtr0309885+FBtr0089211+FBtr0089212+FBtr0089215"; gene_id "FBgn0011642"; exonic_part_number "013" +4 dexseq_prepare_annotation.py exonic_part 1081280 1081285 . - . transcripts "FBtr0089212+FBtr0089215"; gene_id "FBgn0011642"; exonic_part_number "014" +4 dexseq_prepare_annotation.py exonic_part 1081365 1081366 . - . transcripts "FBtr0089215+FBtr0089216+FBtr0089213"; gene_id "FBgn0011642"; exonic_part_number "015" +4 dexseq_prepare_annotation.py exonic_part 1081367 1081398 . - . transcripts "FBtr0309885+FBtr0089213+FBtr0089210+FBtr0309884+FBtr0089216+FBtr0089211+FBtr0089215+FBtr0089212"; gene_id "FBgn0011642"; exonic_part_number "016" +4 dexseq_prepare_annotation.py exonic_part 1081399 1081512 . - . transcripts "FBtr0309885+FBtr0089213+FBtr0089210+FBtr0309884+FBtr0089214+FBtr0089216+FBtr0309883+FBtr0089211+FBtr0089215+FBtr0089212"; gene_id "FBgn0011642"; exonic_part_number "017" +4 dexseq_prepare_annotation.py exonic_part 1081513 1081542 . - . transcripts "FBtr0309885+FBtr0089213+FBtr0089210+FBtr0309884+FBtr0089216+FBtr0309883+FBtr0089211+FBtr0089215+FBtr0089212"; gene_id "FBgn0011642"; exonic_part_number "018" +4 dexseq_prepare_annotation.py exonic_part 1084871 1084936 . - . transcripts "FBtr0309882"; gene_id "FBgn0011642"; exonic_part_number "019" 4 dexseq_prepare_annotation.py aggregate_gene 1109444 1133943 . + . gene_id "FBgn0005561" -4 dexseq_prepare_annotation.py exonic_part 1109444 1109688 . + . transcripts "FBtr0100342+FBtr0100343+FBtr0089328+FBtr0089327"; exonic_part_number "001"; gene_id "FBgn0005561" -4 dexseq_prepare_annotation.py exonic_part 1112885 1113254 . + . transcripts "FBtr0100342+FBtr0100343+FBtr0089328+FBtr0089327"; exonic_part_number "002"; gene_id "FBgn0005561" -4 dexseq_prepare_annotation.py exonic_part 1116202 1116342 . + . transcripts "FBtr0100342+FBtr0100343+FBtr0089328+FBtr0089327"; exonic_part_number "003"; gene_id "FBgn0005561" -4 dexseq_prepare_annotation.py exonic_part 1116420 1116458 . + . transcripts "FBtr0100342+FBtr0089328+FBtr0089327"; exonic_part_number "004"; gene_id "FBgn0005561" -4 dexseq_prepare_annotation.py exonic_part 1122560 1122725 . + . transcripts "FBtr0100342+FBtr0089328+FBtr0089327"; exonic_part_number "005"; gene_id "FBgn0005561" -4 dexseq_prepare_annotation.py exonic_part 1124161 1124358 . + . transcripts "FBtr0100342+FBtr0089328+FBtr0089327"; exonic_part_number "006"; gene_id "FBgn0005561" -4 dexseq_prepare_annotation.py exonic_part 1126778 1127223 . + . transcripts "FBtr0100342+FBtr0089328+FBtr0089327"; exonic_part_number "007"; gene_id "FBgn0005561" -4 dexseq_prepare_annotation.py exonic_part 1128325 1128416 . + . transcripts "FBtr0100342+FBtr0089328+FBtr0089327"; exonic_part_number "008"; gene_id "FBgn0005561" -4 dexseq_prepare_annotation.py exonic_part 1128724 1128970 . + . transcripts "FBtr0100342+FBtr0089328+FBtr0089327"; exonic_part_number "009"; gene_id "FBgn0005561" -4 dexseq_prepare_annotation.py exonic_part 1129100 1129198 . + . transcripts "FBtr0100342+FBtr0089327"; exonic_part_number "010"; gene_id "FBgn0005561" -4 dexseq_prepare_annotation.py exonic_part 1129735 1130226 . + . transcripts "FBtr0089327"; exonic_part_number "011"; gene_id "FBgn0005561" -4 dexseq_prepare_annotation.py exonic_part 1131407 1131514 . + . transcripts "FBtr0100342+FBtr0089328+FBtr0089327"; exonic_part_number "012"; gene_id "FBgn0005561" -4 dexseq_prepare_annotation.py exonic_part 1131914 1133943 . + . transcripts "FBtr0100342+FBtr0089328+FBtr0089327"; exonic_part_number "013"; gene_id "FBgn0005561" +4 dexseq_prepare_annotation.py exonic_part 1109444 1109688 . + . transcripts "FBtr0089327+FBtr0089328+FBtr0100343+FBtr0100342"; gene_id "FBgn0005561"; exonic_part_number "001" +4 dexseq_prepare_annotation.py exonic_part 1112885 1113254 . + . transcripts "FBtr0089327+FBtr0089328+FBtr0100343+FBtr0100342"; gene_id "FBgn0005561"; exonic_part_number "002" +4 dexseq_prepare_annotation.py exonic_part 1116202 1116342 . + . transcripts "FBtr0089327+FBtr0089328+FBtr0100343+FBtr0100342"; gene_id "FBgn0005561"; exonic_part_number "003" +4 dexseq_prepare_annotation.py exonic_part 1116420 1116458 . + . transcripts "FBtr0089327+FBtr0089328+FBtr0100342"; gene_id "FBgn0005561"; exonic_part_number "004" +4 dexseq_prepare_annotation.py exonic_part 1122560 1122725 . + . transcripts "FBtr0089327+FBtr0089328+FBtr0100342"; gene_id "FBgn0005561"; exonic_part_number "005" +4 dexseq_prepare_annotation.py exonic_part 1124161 1124358 . + . transcripts "FBtr0089327+FBtr0089328+FBtr0100342"; gene_id "FBgn0005561"; exonic_part_number "006" +4 dexseq_prepare_annotation.py exonic_part 1126778 1127223 . + . transcripts "FBtr0089327+FBtr0089328+FBtr0100342"; gene_id "FBgn0005561"; exonic_part_number "007" +4 dexseq_prepare_annotation.py exonic_part 1128325 1128416 . + . transcripts "FBtr0089327+FBtr0089328+FBtr0100342"; gene_id "FBgn0005561"; exonic_part_number "008" +4 dexseq_prepare_annotation.py exonic_part 1128724 1128970 . + . transcripts "FBtr0089327+FBtr0089328+FBtr0100342"; gene_id "FBgn0005561"; exonic_part_number "009" +4 dexseq_prepare_annotation.py exonic_part 1129100 1129198 . + . transcripts "FBtr0089327+FBtr0100342"; gene_id "FBgn0005561"; exonic_part_number "010" +4 dexseq_prepare_annotation.py exonic_part 1129735 1130226 . + . transcripts "FBtr0089327"; gene_id "FBgn0005561"; exonic_part_number "011" +4 dexseq_prepare_annotation.py exonic_part 1131407 1131514 . + . transcripts "FBtr0089327+FBtr0089328+FBtr0100342"; gene_id "FBgn0005561"; exonic_part_number "012" +4 dexseq_prepare_annotation.py exonic_part 1131914 1133943 . + . transcripts "FBtr0089327+FBtr0089328+FBtr0100342"; gene_id "FBgn0005561"; exonic_part_number "013" XHet dexseq_prepare_annotation.py aggregate_gene 69195 80249 . + . gene_id "FBgn0003559" -XHet dexseq_prepare_annotation.py exonic_part 69195 69305 . + . transcripts "FBtr0113732"; exonic_part_number "001"; gene_id "FBgn0003559" -XHet dexseq_prepare_annotation.py exonic_part 75615 75685 . + . transcripts "FBtr0306544"; exonic_part_number "002"; gene_id "FBgn0003559" -XHet dexseq_prepare_annotation.py exonic_part 75686 75693 . + . transcripts "FBtr0306545+FBtr0306544"; exonic_part_number "003"; gene_id "FBgn0003559" -XHet dexseq_prepare_annotation.py exonic_part 75694 75740 . + . transcripts "FBtr0306545"; exonic_part_number "004"; gene_id "FBgn0003559" -XHet dexseq_prepare_annotation.py exonic_part 76177 76237 . + . transcripts "FBtr0309956+FBtr0113733"; exonic_part_number "005"; gene_id "FBgn0003559" -XHet dexseq_prepare_annotation.py exonic_part 76238 76549 . + . transcripts "FBtr0113733+FBtr0309956+FBtr0113732+FBtr0306545+FBtr0306544"; exonic_part_number "006"; gene_id "FBgn0003559" -XHet dexseq_prepare_annotation.py exonic_part 76611 76933 . + . transcripts "FBtr0113733+FBtr0309956+FBtr0113732+FBtr0306545+FBtr0306544"; exonic_part_number "007"; gene_id "FBgn0003559" -XHet dexseq_prepare_annotation.py exonic_part 77098 77373 . + . transcripts "FBtr0113733+FBtr0309956+FBtr0113732+FBtr0306545+FBtr0306544"; exonic_part_number "008"; gene_id "FBgn0003559" -XHet dexseq_prepare_annotation.py exonic_part 77432 77735 . + . transcripts "FBtr0113733+FBtr0309956+FBtr0113732+FBtr0306545+FBtr0306544"; exonic_part_number "009"; gene_id "FBgn0003559" -XHet dexseq_prepare_annotation.py exonic_part 77736 77831 . + . transcripts "FBtr0309956+FBtr0113732+FBtr0306544"; exonic_part_number "010"; gene_id "FBgn0003559" -XHet dexseq_prepare_annotation.py exonic_part 77832 77847 . + . transcripts "FBtr0309956"; exonic_part_number "011"; gene_id "FBgn0003559" -XHet dexseq_prepare_annotation.py exonic_part 78036 78227 . + . transcripts "FBtr0113733+FBtr0306545+FBtr0113732+FBtr0306544"; exonic_part_number "012"; gene_id "FBgn0003559" -XHet dexseq_prepare_annotation.py exonic_part 78293 78706 . + . transcripts "FBtr0113733+FBtr0306545+FBtr0113732+FBtr0306544"; exonic_part_number "013"; gene_id "FBgn0003559" -XHet dexseq_prepare_annotation.py exonic_part 78763 78870 . + . transcripts "FBtr0113733+FBtr0306545+FBtr0113732+FBtr0306544"; exonic_part_number "014"; gene_id "FBgn0003559" -XHet dexseq_prepare_annotation.py exonic_part 79320 79620 . + . transcripts "FBtr0113733+FBtr0306545+FBtr0113732+FBtr0306544"; exonic_part_number "015"; gene_id "FBgn0003559" -XHet dexseq_prepare_annotation.py exonic_part 79678 80010 . + . transcripts "FBtr0113733+FBtr0306545+FBtr0113732+FBtr0306544"; exonic_part_number "016"; gene_id "FBgn0003559" -XHet dexseq_prepare_annotation.py exonic_part 80011 80249 . + . transcripts "FBtr0306544"; exonic_part_number "017"; gene_id "FBgn0003559" +XHet dexseq_prepare_annotation.py exonic_part 69195 69305 . + . transcripts "FBtr0113732"; gene_id "FBgn0003559"; exonic_part_number "001" +XHet dexseq_prepare_annotation.py exonic_part 75615 75685 . + . transcripts "FBtr0306544"; gene_id "FBgn0003559"; exonic_part_number "002" +XHet dexseq_prepare_annotation.py exonic_part 75686 75693 . + . transcripts "FBtr0306545+FBtr0306544"; gene_id "FBgn0003559"; exonic_part_number "003" +XHet dexseq_prepare_annotation.py exonic_part 75694 75740 . + . transcripts "FBtr0306545"; gene_id "FBgn0003559"; exonic_part_number "004" +XHet dexseq_prepare_annotation.py exonic_part 76177 76237 . + . transcripts "FBtr0309956+FBtr0113733"; gene_id "FBgn0003559"; exonic_part_number "005" +XHet dexseq_prepare_annotation.py exonic_part 76238 76549 . + . transcripts "FBtr0113732+FBtr0309956+FBtr0306545+FBtr0113733+FBtr0306544"; gene_id "FBgn0003559"; exonic_part_number "006" +XHet dexseq_prepare_annotation.py exonic_part 76611 76933 . + . transcripts "FBtr0113732+FBtr0309956+FBtr0306545+FBtr0113733+FBtr0306544"; gene_id "FBgn0003559"; exonic_part_number "007" +XHet dexseq_prepare_annotation.py exonic_part 77098 77373 . + . transcripts "FBtr0113732+FBtr0309956+FBtr0306545+FBtr0113733+FBtr0306544"; gene_id "FBgn0003559"; exonic_part_number "008" +XHet dexseq_prepare_annotation.py exonic_part 77432 77735 . + . transcripts "FBtr0113732+FBtr0309956+FBtr0306545+FBtr0113733+FBtr0306544"; gene_id "FBgn0003559"; exonic_part_number "009" +XHet dexseq_prepare_annotation.py exonic_part 77736 77831 . + . transcripts "FBtr0113732+FBtr0309956+FBtr0306544"; gene_id "FBgn0003559"; exonic_part_number "010" +XHet dexseq_prepare_annotation.py exonic_part 77832 77847 . + . transcripts "FBtr0309956"; gene_id "FBgn0003559"; exonic_part_number "011" +XHet dexseq_prepare_annotation.py exonic_part 78036 78227 . + . transcripts "FBtr0113732+FBtr0306545+FBtr0113733+FBtr0306544"; gene_id "FBgn0003559"; exonic_part_number "012" +XHet dexseq_prepare_annotation.py exonic_part 78293 78706 . + . transcripts "FBtr0113732+FBtr0306545+FBtr0113733+FBtr0306544"; gene_id "FBgn0003559"; exonic_part_number "013" +XHet dexseq_prepare_annotation.py exonic_part 78763 78870 . + . transcripts "FBtr0113732+FBtr0306545+FBtr0113733+FBtr0306544"; gene_id "FBgn0003559"; exonic_part_number "014" +XHet dexseq_prepare_annotation.py exonic_part 79320 79620 . + . transcripts "FBtr0113732+FBtr0306545+FBtr0113733+FBtr0306544"; gene_id "FBgn0003559"; exonic_part_number "015" +XHet dexseq_prepare_annotation.py exonic_part 79678 80010 . + . transcripts "FBtr0113732+FBtr0306545+FBtr0113733+FBtr0306544"; gene_id "FBgn0003559"; exonic_part_number "016" +XHet dexseq_prepare_annotation.py exonic_part 80011 80249 . + . transcripts "FBtr0306544"; gene_id "FBgn0003559"; exonic_part_number "017" YHet dexseq_prepare_annotation.py aggregate_gene 311 33413 . + . gene_id "FBgn0001315" -YHet dexseq_prepare_annotation.py exonic_part 311 424 . + . transcripts "FBtr0113891"; exonic_part_number "001"; gene_id "FBgn0001315" -YHet dexseq_prepare_annotation.py exonic_part 540 799 . + . transcripts "FBtr0113891"; exonic_part_number "002"; gene_id "FBgn0001315" -YHet dexseq_prepare_annotation.py exonic_part 857 1196 . + . transcripts "FBtr0113891"; exonic_part_number "003"; gene_id "FBgn0001315" -YHet dexseq_prepare_annotation.py exonic_part 1254 1519 . + . transcripts "FBtr0113891"; exonic_part_number "004"; gene_id "FBgn0001315" -YHet dexseq_prepare_annotation.py exonic_part 1576 1729 . + . transcripts "FBtr0113891"; exonic_part_number "005"; gene_id "FBgn0001315" -YHet dexseq_prepare_annotation.py exonic_part 1816 2154 . + . transcripts "FBtr0113891"; exonic_part_number "006"; gene_id "FBgn0001315" -YHet dexseq_prepare_annotation.py exonic_part 2212 2324 . + . transcripts "FBtr0113891"; exonic_part_number "007"; gene_id "FBgn0001315" -YHet dexseq_prepare_annotation.py exonic_part 2376 2667 . + . transcripts "FBtr0113891"; exonic_part_number "008"; gene_id "FBgn0001315" -YHet dexseq_prepare_annotation.py exonic_part 2726 2879 . + . transcripts "FBtr0113891"; exonic_part_number "009"; gene_id "FBgn0001315" -YHet dexseq_prepare_annotation.py exonic_part 15564 15931 . + . transcripts "FBtr0113891"; exonic_part_number "010"; gene_id "FBgn0001315" -YHet dexseq_prepare_annotation.py exonic_part 16461 16907 . + . transcripts "FBtr0113891"; exonic_part_number "011"; gene_id "FBgn0001315" -YHet dexseq_prepare_annotation.py exonic_part 16954 19761 . + . transcripts "FBtr0113891"; exonic_part_number "012"; gene_id "FBgn0001315" -YHet dexseq_prepare_annotation.py exonic_part 30303 30469 . + . transcripts "FBtr0113891"; exonic_part_number "013"; gene_id "FBgn0001315" -YHet dexseq_prepare_annotation.py exonic_part 30522 31622 . + . transcripts "FBtr0113891"; exonic_part_number "014"; gene_id "FBgn0001315" -YHet dexseq_prepare_annotation.py exonic_part 33215 33413 . + . transcripts "FBtr0113891"; exonic_part_number "015"; gene_id "FBgn0001315" +YHet dexseq_prepare_annotation.py exonic_part 311 424 . + . transcripts "FBtr0113891"; gene_id "FBgn0001315"; exonic_part_number "001" +YHet dexseq_prepare_annotation.py exonic_part 540 799 . + . transcripts "FBtr0113891"; gene_id "FBgn0001315"; exonic_part_number "002" +YHet dexseq_prepare_annotation.py exonic_part 857 1196 . + . transcripts "FBtr0113891"; gene_id "FBgn0001315"; exonic_part_number "003" +YHet dexseq_prepare_annotation.py exonic_part 1254 1519 . + . transcripts "FBtr0113891"; gene_id "FBgn0001315"; exonic_part_number "004" +YHet dexseq_prepare_annotation.py exonic_part 1576 1729 . + . transcripts "FBtr0113891"; gene_id "FBgn0001315"; exonic_part_number "005" +YHet dexseq_prepare_annotation.py exonic_part 1816 2154 . + . transcripts "FBtr0113891"; gene_id "FBgn0001315"; exonic_part_number "006" +YHet dexseq_prepare_annotation.py exonic_part 2212 2324 . + . transcripts "FBtr0113891"; gene_id "FBgn0001315"; exonic_part_number "007" +YHet dexseq_prepare_annotation.py exonic_part 2376 2667 . + . transcripts "FBtr0113891"; gene_id "FBgn0001315"; exonic_part_number "008" +YHet dexseq_prepare_annotation.py exonic_part 2726 2879 . + . transcripts "FBtr0113891"; gene_id "FBgn0001315"; exonic_part_number "009" +YHet dexseq_prepare_annotation.py exonic_part 15564 15931 . + . transcripts "FBtr0113891"; gene_id "FBgn0001315"; exonic_part_number "010" +YHet dexseq_prepare_annotation.py exonic_part 16461 16907 . + . transcripts "FBtr0113891"; gene_id "FBgn0001315"; exonic_part_number "011" +YHet dexseq_prepare_annotation.py exonic_part 16954 19761 . + . transcripts "FBtr0113891"; gene_id "FBgn0001315"; exonic_part_number "012" +YHet dexseq_prepare_annotation.py exonic_part 30303 30469 . + . transcripts "FBtr0113891"; gene_id "FBgn0001315"; exonic_part_number "013" +YHet dexseq_prepare_annotation.py exonic_part 30522 31622 . + . transcripts "FBtr0113891"; gene_id "FBgn0001315"; exonic_part_number "014" +YHet dexseq_prepare_annotation.py exonic_part 33215 33413 . + . transcripts "FBtr0113891"; gene_id "FBgn0001315"; exonic_part_number "015" YHet dexseq_prepare_annotation.py aggregate_gene 34290 65839 . + . gene_id "FBgn0001314" -YHet dexseq_prepare_annotation.py exonic_part 34290 35635 . + . transcripts "FBtr0113756"; exonic_part_number "001"; gene_id "FBgn0001314" -YHet dexseq_prepare_annotation.py exonic_part 35699 37083 . + . transcripts "FBtr0113756"; exonic_part_number "002"; gene_id "FBgn0001314" -YHet dexseq_prepare_annotation.py exonic_part 39036 39370 . + . transcripts "FBtr0113756"; exonic_part_number "003"; gene_id "FBgn0001314" -YHet dexseq_prepare_annotation.py exonic_part 52186 52593 . + . transcripts "FBtr0113756"; exonic_part_number "004"; gene_id "FBgn0001314" -YHet dexseq_prepare_annotation.py exonic_part 52629 52993 . + . transcripts "FBtr0113756"; exonic_part_number "005"; gene_id "FBgn0001314" -YHet dexseq_prepare_annotation.py exonic_part 53268 54728 . + . transcripts "FBtr0113756"; exonic_part_number "006"; gene_id "FBgn0001314" -YHet dexseq_prepare_annotation.py exonic_part 62657 63619 . + . transcripts "FBtr0113756"; exonic_part_number "007"; gene_id "FBgn0001314" -YHet dexseq_prepare_annotation.py exonic_part 63770 65605 . + . transcripts "FBtr0113756"; exonic_part_number "008"; gene_id "FBgn0001314" -YHet dexseq_prepare_annotation.py exonic_part 65661 65839 . + . transcripts "FBtr0113756"; exonic_part_number "009"; gene_id "FBgn0001314" +YHet dexseq_prepare_annotation.py exonic_part 34290 35635 . + . transcripts "FBtr0113756"; gene_id "FBgn0001314"; exonic_part_number "001" +YHet dexseq_prepare_annotation.py exonic_part 35699 37083 . + . transcripts "FBtr0113756"; gene_id "FBgn0001314"; exonic_part_number "002" +YHet dexseq_prepare_annotation.py exonic_part 39036 39370 . + . transcripts "FBtr0113756"; gene_id "FBgn0001314"; exonic_part_number "003" +YHet dexseq_prepare_annotation.py exonic_part 52186 52593 . + . transcripts "FBtr0113756"; gene_id "FBgn0001314"; exonic_part_number "004" +YHet dexseq_prepare_annotation.py exonic_part 52629 52993 . + . transcripts "FBtr0113756"; gene_id "FBgn0001314"; exonic_part_number "005" +YHet dexseq_prepare_annotation.py exonic_part 53268 54728 . + . transcripts "FBtr0113756"; gene_id "FBgn0001314"; exonic_part_number "006" +YHet dexseq_prepare_annotation.py exonic_part 62657 63619 . + . transcripts "FBtr0113756"; gene_id "FBgn0001314"; exonic_part_number "007" +YHet dexseq_prepare_annotation.py exonic_part 63770 65605 . + . transcripts "FBtr0113756"; gene_id "FBgn0001314"; exonic_part_number "008" +YHet dexseq_prepare_annotation.py exonic_part 65661 65839 . + . transcripts "FBtr0113756"; gene_id "FBgn0001314"; exonic_part_number "009" YHet dexseq_prepare_annotation.py aggregate_gene 81209 148249 . + . gene_id "FBgn0001313" -YHet dexseq_prepare_annotation.py exonic_part 81209 83052 . + . transcripts "FBtr0300022"; exonic_part_number "001"; gene_id "FBgn0001313" -YHet dexseq_prepare_annotation.py exonic_part 122064 122745 . + . transcripts "FBtr0300022"; exonic_part_number "002"; gene_id "FBgn0001313" -YHet dexseq_prepare_annotation.py exonic_part 122800 123184 . + . transcripts "FBtr0300022"; exonic_part_number "003"; gene_id "FBgn0001313" -YHet dexseq_prepare_annotation.py exonic_part 135429 135872 . + . transcripts "FBtr0300022"; exonic_part_number "004"; gene_id "FBgn0001313" -YHet dexseq_prepare_annotation.py exonic_part 138620 139940 . + . transcripts "FBtr0300022"; exonic_part_number "005"; gene_id "FBgn0001313" -YHet dexseq_prepare_annotation.py exonic_part 140189 141784 . + . transcripts "FBtr0300022"; exonic_part_number "006"; gene_id "FBgn0001313" -YHet dexseq_prepare_annotation.py exonic_part 141841 145922 . + . transcripts "FBtr0300022"; exonic_part_number "007"; gene_id "FBgn0001313" -YHet dexseq_prepare_annotation.py exonic_part 145985 146089 . + . transcripts "FBtr0300022"; exonic_part_number "008"; gene_id "FBgn0001313" -YHet dexseq_prepare_annotation.py exonic_part 146143 147085 . + . transcripts "FBtr0300022"; exonic_part_number "009"; gene_id "FBgn0001313" -YHet dexseq_prepare_annotation.py exonic_part 147145 147638 . + . transcripts "FBtr0300022"; exonic_part_number "010"; gene_id "FBgn0001313" -YHet dexseq_prepare_annotation.py exonic_part 147696 148249 . + . transcripts "FBtr0300022"; exonic_part_number "011"; gene_id "FBgn0001313" +YHet dexseq_prepare_annotation.py exonic_part 81209 83052 . + . transcripts "FBtr0300022"; gene_id "FBgn0001313"; exonic_part_number "001" +YHet dexseq_prepare_annotation.py exonic_part 122064 122745 . + . transcripts "FBtr0300022"; gene_id "FBgn0001313"; exonic_part_number "002" +YHet dexseq_prepare_annotation.py exonic_part 122800 123184 . + . transcripts "FBtr0300022"; gene_id "FBgn0001313"; exonic_part_number "003" +YHet dexseq_prepare_annotation.py exonic_part 135429 135872 . + . transcripts "FBtr0300022"; gene_id "FBgn0001313"; exonic_part_number "004" +YHet dexseq_prepare_annotation.py exonic_part 138620 139940 . + . transcripts "FBtr0300022"; gene_id "FBgn0001313"; exonic_part_number "005" +YHet dexseq_prepare_annotation.py exonic_part 140189 141784 . + . transcripts "FBtr0300022"; gene_id "FBgn0001313"; exonic_part_number "006" +YHet dexseq_prepare_annotation.py exonic_part 141841 145922 . + . transcripts "FBtr0300022"; gene_id "FBgn0001313"; exonic_part_number "007" +YHet dexseq_prepare_annotation.py exonic_part 145985 146089 . + . transcripts "FBtr0300022"; gene_id "FBgn0001313"; exonic_part_number "008" +YHet dexseq_prepare_annotation.py exonic_part 146143 147085 . + . transcripts "FBtr0300022"; gene_id "FBgn0001313"; exonic_part_number "009" +YHet dexseq_prepare_annotation.py exonic_part 147145 147638 . + . transcripts "FBtr0300022"; gene_id "FBgn0001313"; exonic_part_number "010" +YHet dexseq_prepare_annotation.py exonic_part 147696 148249 . + . transcripts "FBtr0300022"; gene_id "FBgn0001313"; exonic_part_number "011" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 1 65 . + . gene_id "FBgn0013696" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 1 65 . + . transcripts "FBtr0100854"; exonic_part_number "001"; gene_id "FBgn0013696" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 1 65 . + . transcripts "FBtr0100854"; gene_id "FBgn0013696"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 97 165 . - . gene_id "FBgn0013703" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 97 165 . - . transcripts "FBtr0100855"; exonic_part_number "001"; gene_id "FBgn0013703" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 97 165 . - . transcripts "FBtr0100855"; gene_id "FBgn0013703"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 171 239 . + . gene_id "FBgn0013700" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 171 239 . + . transcripts "FBtr0100856"; exonic_part_number "001"; gene_id "FBgn0013700" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 171 239 . + . transcripts "FBtr0100856"; gene_id "FBgn0013700"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 1322 1383 . - . gene_id "FBgn0013690" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 1322 1383 . - . transcripts "FBtr0100859"; exonic_part_number "001"; gene_id "FBgn0013690" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 1322 1383 . - . transcripts "FBtr0100859"; gene_id "FBgn0013690"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 1403 1468 . - . gene_id "FBgn0013710" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 1403 1468 . - . transcripts "FBtr0100860"; exonic_part_number "001"; gene_id "FBgn0013710" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 1403 1468 . - . transcripts "FBtr0100860"; gene_id "FBgn0013710"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 1474 3009 . + . gene_id "FBgn0013674" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 1474 3009 . + . transcripts "FBtr0100861"; exonic_part_number "001"; gene_id "FBgn0013674" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 1474 3009 . + . transcripts "FBtr0100861"; gene_id "FBgn0013674"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 3012 3077 . + . gene_id "FBgn0013699" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 3012 3077 . + . transcripts "FBtr0100862"; exonic_part_number "001"; gene_id "FBgn0013699" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 3012 3077 . + . transcripts "FBtr0100862"; gene_id "FBgn0013699"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 3083 3767 . + . gene_id "FBgn0013675" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 3083 3767 . + . transcripts "FBtr0100863"; exonic_part_number "001"; gene_id "FBgn0013675" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 3083 3767 . + . transcripts "FBtr0100863"; gene_id "FBgn0013675"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 3768 3838 . + . gene_id "FBgn0013697" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 3768 3838 . + . transcripts "FBtr0100864"; exonic_part_number "001"; gene_id "FBgn0013697" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 3768 3838 . + . transcripts "FBtr0100864"; gene_id "FBgn0013697"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 3840 3906 . + . gene_id "FBgn0013691" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 3840 3906 . + . transcripts "FBtr0100865"; exonic_part_number "001"; gene_id "FBgn0013691" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 3840 3906 . + . transcripts "FBtr0100865"; gene_id "FBgn0013691"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 5543 5607 . + . gene_id "FBgn0013694" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 5543 5607 . + . transcripts "FBtr0100869"; exonic_part_number "001"; gene_id "FBgn0013694" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 5543 5607 . + . transcripts "FBtr0100869"; gene_id "FBgn0013694"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 5608 5961 . + . gene_id "FBgn0013681" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 5608 5961 . + . transcripts "FBtr0100870"; exonic_part_number "001"; gene_id "FBgn0013681" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 5608 5961 . + . transcripts "FBtr0100870"; gene_id "FBgn0013681"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 5981 6045 . + . gene_id "FBgn0013689" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 5981 6045 . + . transcripts "FBtr0100871"; exonic_part_number "001"; gene_id "FBgn0013689" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 5981 6045 . + . transcripts "FBtr0100871"; gene_id "FBgn0013689"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 6055 6118 . + . gene_id "FBgn0013704" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 6055 6118 . + . transcripts "FBtr0100872"; exonic_part_number "001"; gene_id "FBgn0013704" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 6055 6118 . + . transcripts "FBtr0100872"; gene_id "FBgn0013704"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 6119 6183 . + . gene_id "FBgn0013701" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 6119 6183 . + . transcripts "FBtr0100873"; exonic_part_number "001"; gene_id "FBgn0013701" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 6119 6183 . + . transcripts "FBtr0100873"; gene_id "FBgn0013701"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 6184 6251 . + . gene_id "FBgn0013705" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 6184 6251 . + . transcripts "FBtr0100874"; exonic_part_number "001"; gene_id "FBgn0013705" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 6184 6251 . + . transcripts "FBtr0100874"; gene_id "FBgn0013705"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 6252 6318 . + . gene_id "FBgn0013692" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 6252 6318 . + . transcripts "FBtr0100875"; exonic_part_number "001"; gene_id "FBgn0013692" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 6252 6318 . + . transcripts "FBtr0100875"; gene_id "FBgn0013692"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 6337 6401 . - . gene_id "FBgn0013693" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 6337 6401 . - . transcripts "FBtr0100876"; exonic_part_number "001"; gene_id "FBgn0013693" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 6337 6401 . - . transcripts "FBtr0100876"; gene_id "FBgn0013693"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 6402 8124 . - . gene_id "FBgn0013684" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 6402 8124 . - . transcripts "FBtr0100877"; exonic_part_number "001"; gene_id "FBgn0013684" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 6402 8124 . - . transcripts "FBtr0100877"; gene_id "FBgn0013684"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 8140 8205 . - . gene_id "FBgn0013695" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 8140 8205 . - . transcripts "FBtr0100878"; exonic_part_number "001"; gene_id "FBgn0013695" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 8140 8205 . - . transcripts "FBtr0100878"; gene_id "FBgn0013695"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 9837 9902 . + . gene_id "FBgn0013707" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 9837 9902 . + . transcripts "FBtr0100881"; exonic_part_number "001"; gene_id "FBgn0013707" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 9837 9902 . + . transcripts "FBtr0100881"; gene_id "FBgn0013707"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 9903 9963 . - . gene_id "FBgn0013702" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 9903 9963 . - . transcripts "FBtr0100882"; exonic_part_number "001"; gene_id "FBgn0013702" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 9903 9963 . - . transcripts "FBtr0100882"; gene_id "FBgn0013702"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 9970 10494 . + . gene_id "FBgn0013685" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 9970 10494 . + . transcripts "FBtr0100883"; exonic_part_number "001"; gene_id "FBgn0013685" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 9970 10494 . + . transcripts "FBtr0100883"; gene_id "FBgn0013685"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 10498 11634 . + . gene_id "FBgn0013678" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 10498 11634 . + . transcripts "FBtr0100884"; exonic_part_number "001"; gene_id "FBgn0013678" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 10498 11634 . + . transcripts "FBtr0100884"; gene_id "FBgn0013678"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 11637 11702 . + . gene_id "FBgn0013706" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 11637 11702 . + . transcripts "FBtr0100885"; exonic_part_number "001"; gene_id "FBgn0013706" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 11637 11702 . + . transcripts "FBtr0100885"; gene_id "FBgn0013706"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 11720 12658 . - . gene_id "FBgn0013679" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 11720 12658 . - . transcripts "FBtr0100886"; exonic_part_number "001"; gene_id "FBgn0013679" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 11720 12658 . - . transcripts "FBtr0100886"; gene_id "FBgn0013679"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 12669 12733 . - . gene_id "FBgn0013698" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 12669 12733 . - . transcripts "FBtr0100887"; exonic_part_number "001"; gene_id "FBgn0013698" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 12669 12733 . - . transcripts "FBtr0100887"; gene_id "FBgn0013698"; exonic_part_number "001" dmel_mitochondrion_genome dexseq_prepare_annotation.py aggregate_gene 14131 14916 . - . gene_id "FBgn0013688" -dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 14131 14916 . - . transcripts "FBtr0100890"; exonic_part_number "001"; gene_id "FBgn0013688" +dmel_mitochondrion_genome dexseq_prepare_annotation.py exonic_part 14131 14916 . - . transcripts "FBtr0100890"; gene_id "FBgn0013688"; exonic_part_number "001"