From b1dde15ddffd0913b58ae59dab6e0a01c9bc481b Mon Sep 17 00:00:00 2001 From: Luca Venturini Date: Mon, 5 Oct 2015 21:25:51 +0100 Subject: [PATCH] Closed issue #23. Expanded test set, now ID tagging functions as intended. Sorting might still be problematic b/c we might have overlapping +/- superloci, but in general it seems to function. --- sample_data/class.gtf | 36 ++++ sample_data/configuration.yaml | 2 +- sample_data/cufflinks.gtf | 52 +++++- sample_data/stringtie.gtf | 8 + sample_data/trinity.gtf | 326 ++++++++++++++++++--------------- 5 files changed, 270 insertions(+), 154 deletions(-) diff --git a/sample_data/class.gtf b/sample_data/class.gtf index 19f6ce203..f01cea43b 100644 --- a/sample_data/class.gtf +++ b/sample_data/class.gtf @@ -1,3 +1,28 @@ +Chr5 CLASS transcript 26575711 26578087 1000 - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6272";exon_number "1";Abundance "2.980217"; +Chr5 CLASS exon 26575711 26575797 . - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6272"; +Chr5 CLASS exon 26575885 26575944 . - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6272"; +Chr5 CLASS exon 26576035 26576134 . - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6272"; +Chr5 CLASS exon 26576261 26577069 . - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6272"; +Chr5 CLASS exon 26577163 26577288 . - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6272"; +Chr5 CLASS exon 26577378 26577449 . - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6272"; +Chr5 CLASS exon 26577856 26578087 . - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6272"; +Chr5 CLASS transcript 26575711 26579730 1000 - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6271";exon_number "1";Abundance "1.141582"; +Chr5 CLASS exon 26575711 26575797 . - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6271"; +Chr5 CLASS exon 26575885 26575944 . - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6271"; +Chr5 CLASS exon 26576035 26576134 . - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6271"; +Chr5 CLASS exon 26576261 26577069 . - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6271"; +Chr5 CLASS exon 26577163 26577288 . - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6271"; +Chr5 CLASS exon 26577378 26577449 . - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6271"; +Chr5 CLASS exon 26577856 26577937 . - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6271"; +Chr5 CLASS exon 26578239 26578792 . - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6271"; +Chr5 CLASS exon 26579079 26579161 . - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6271"; +Chr5 CLASS exon 26579301 26579395 . - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6271"; +Chr5 CLASS exon 26579602 26579730 . - . gene_id "Chr5.5875.gene";transcript_id "Chr5.6271"; +Chr5 CLASS transcript 26581272 26583672 1000 - . gene_id "Chr5.5876.gene";transcript_id "Chr5.6273";exon_number "1";Abundance "0.847970"; +Chr5 CLASS exon 26581272 26581528 . - . gene_id "Chr5.5876.gene";transcript_id "Chr5.6273"; +Chr5 CLASS exon 26583335 26583672 . - . gene_id "Chr5.5876.gene";transcript_id "Chr5.6273"; +Chr5 CLASS transcript 26583267 26583672 1000 . . gene_id "Chr5.5877.gene";transcript_id "Chr5.6274";exon_number "1";Abundance "0.637901"; +Chr5 CLASS exon 26583267 26583672 . . . gene_id "Chr5.5877.gene";transcript_id "Chr5.6274"; Chr5 CLASS transcript 26584128 26584508 1000 - . gene_id "Chr5.5878.gene";transcript_id "Chr5.6275";exon_number "1";Abundance "0.080689"; Chr5 CLASS exon 26584128 26584278 . - . gene_id "Chr5.5878.gene";transcript_id "Chr5.6275"; Chr5 CLASS exon 26584358 26584508 . - . gene_id "Chr5.5878.gene";transcript_id "Chr5.6275"; @@ -67,3 +92,14 @@ Chr5 CLASS exon 26600314 26600394 . + . gene_id "Chr5.5885.gene";transcript_id " Chr5 CLASS exon 26600497 26600616 . + . gene_id "Chr5.5885.gene";transcript_id "Chr5.6286"; Chr5 CLASS exon 26600696 26600908 . + . gene_id "Chr5.5885.gene";transcript_id "Chr5.6286"; Chr5 CLASS exon 26600987 26601137 . + . gene_id "Chr5.5885.gene";transcript_id "Chr5.6286"; +Chr5 CLASS transcript 26603313 26604166 1000 - . gene_id "Chr5.5887.gene";transcript_id "Chr5.6287";exon_number "1";Abundance "85.574225"; +Chr5 CLASS exon 26603313 26603638 . - . gene_id "Chr5.5887.gene";transcript_id "Chr5.6287"; +Chr5 CLASS exon 26603727 26604166 . - . gene_id "Chr5.5887.gene";transcript_id "Chr5.6287"; +Chr5 CLASS transcript 26612190 26614205 1000 - . gene_id "Chr5.5888.gene";transcript_id "Chr5.6289";exon_number "1";Abundance "0.230108"; +Chr5 CLASS exon 26612190 26612727 . - . gene_id "Chr5.5888.gene";transcript_id "Chr5.6289"; +Chr5 CLASS exon 26612846 26613194 . - . gene_id "Chr5.5888.gene";transcript_id "Chr5.6289"; +Chr5 CLASS exon 26613900 26614205 . - . gene_id "Chr5.5888.gene";transcript_id "Chr5.6289"; +Chr5 CLASS transcript 26612190 26614205 1000 - . gene_id "Chr5.5888.gene";transcript_id "Chr5.6288";exon_number "1";Abundance "0.228615"; +Chr5 CLASS exon 26612190 26612727 . - . gene_id "Chr5.5888.gene";transcript_id "Chr5.6288"; +Chr5 CLASS exon 26612846 26612932 . - . gene_id "Chr5.5888.gene";transcript_id "Chr5.6288"; +Chr5 CLASS exon 26613900 26614205 . - . gene_id "Chr5.5888.gene";transcript_id "Chr5.6288"; diff --git a/sample_data/configuration.yaml b/sample_data/configuration.yaml index bf80252f5..001aa8b7f 100644 --- a/sample_data/configuration.yaml +++ b/sample_data/configuration.yaml @@ -22,7 +22,7 @@ run_options: purge: true remove_overlapping_fragments: true fragments_maximal_cds: 100 - subloci_from_cds_only: true + subloci_from_cds_only: false threads: 5 preload: true scoring_file: plants.yaml \ No newline at end of file diff --git a/sample_data/cufflinks.gtf b/sample_data/cufflinks.gtf index 2947ee104..ab287ff6e 100644 --- a/sample_data/cufflinks.gtf +++ b/sample_data/cufflinks.gtf @@ -1,4 +1,19 @@ -Chr5 Cufflinks transcript 26584796 26587773 1000 + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.2";exon_number "1";frac "0.418208";conf_hi "2.115764";cov "57.713979";FPKM "1.9035966503";conf_lo "1.696700"; +Chr5 Cufflinks transcript 26575364 26578163 1000 - . gene_id "cufflinks_star_at.23553";transcript_id "cufflinks_star_at.23553.1";exon_number "1";FPKM "2.9700103727";conf_hi "3.260618";frac "0.732092";cov "81.895309";conf_lo "2.679403"; +Chr5 Cufflinks exon 26575364 26575410 . - . gene_id "cufflinks_star_at.23553";transcript_id "cufflinks_star_at.23553.1"; +Chr5 Cufflinks exon 26575495 26575620 . - . gene_id "cufflinks_star_at.23553";transcript_id "cufflinks_star_at.23553.1"; +Chr5 Cufflinks exon 26575711 26575797 . - . gene_id "cufflinks_star_at.23553";transcript_id "cufflinks_star_at.23553.1"; +Chr5 Cufflinks exon 26575885 26575944 . - . gene_id "cufflinks_star_at.23553";transcript_id "cufflinks_star_at.23553.1"; +Chr5 Cufflinks exon 26576035 26576134 . - . gene_id "cufflinks_star_at.23553";transcript_id "cufflinks_star_at.23553.1"; +Chr5 Cufflinks exon 26576261 26577069 . - . gene_id "cufflinks_star_at.23553";transcript_id "cufflinks_star_at.23553.1"; +Chr5 Cufflinks exon 26577163 26577288 . - . gene_id "cufflinks_star_at.23553";transcript_id "cufflinks_star_at.23553.1"; +Chr5 Cufflinks exon 26577378 26577449 . - . gene_id "cufflinks_star_at.23553";transcript_id "cufflinks_star_at.23553.1"; +Chr5 Cufflinks exon 26577856 26578163 . - . gene_id "cufflinks_star_at.23553";transcript_id "cufflinks_star_at.23553.1"; +Chr5 Cufflinks transcript 26581218 26583874 1000 - . gene_id "cufflinks_star_at.23551";transcript_id "cufflinks_star_at.23551.1";exon_number "1";FPKM "0.4343609420";conf_hi "0.577851";frac "0.751684";cov "11.982854";conf_lo "0.293994"; +Chr5 Cufflinks exon 26581218 26581528 . - . gene_id "cufflinks_star_at.23551";transcript_id "cufflinks_star_at.23551.1"; +Chr5 Cufflinks exon 26583335 26583874 . - . gene_id "cufflinks_star_at.23551";transcript_id "cufflinks_star_at.23551.1"; +Chr5 Cufflinks transcript 26583267 26583874 913 - . gene_id "cufflinks_star_at.23551";transcript_id "cufflinks_star_at.23551.2";exon_number "1";FPKM "0.3967071252";conf_hi "0.644641";frac "0.248316";cov "10.944086";conf_lo "0.168167"; +Chr5 Cufflinks exon 26583267 26583874 . - . gene_id "cufflinks_star_at.23551";transcript_id "cufflinks_star_at.23551.2"; +Chr5 Cufflinks transcript 26584796 26587773 1000 + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.2";exon_number "1";FPKM "1.9035966503";conf_hi "2.115764";frac "0.418208";cov "57.713979";conf_lo "1.696700"; Chr5 Cufflinks exon 26584796 26584879 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.2"; Chr5 Cufflinks exon 26585220 26585273 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.2"; Chr5 Cufflinks exon 26585345 26585889 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.2"; @@ -9,7 +24,7 @@ Chr5 Cufflinks exon 26586934 26586996 . + . gene_id "cufflinks_star_at.23555";tr Chr5 Cufflinks exon 26587084 26587202 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.2"; Chr5 Cufflinks exon 26587287 26587345 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.2"; Chr5 Cufflinks exon 26587427 26587773 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.2"; -Chr5 Cufflinks transcript 26584796 26587773 224 + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.1";exon_number "1";frac "0.096365";conf_hi "0.527182";cov "12.941804";FPKM "0.4268632253";conf_lo "0.328246"; +Chr5 Cufflinks transcript 26584796 26587773 224 + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.1";exon_number "1";FPKM "0.4268632253";conf_hi "0.527182";frac "0.096365";cov "12.941804";conf_lo "0.328246"; Chr5 Cufflinks exon 26584796 26584879 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.1"; Chr5 Cufflinks exon 26585220 26585273 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.1"; Chr5 Cufflinks exon 26585345 26585889 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.1"; @@ -19,7 +34,7 @@ Chr5 Cufflinks exon 26586633 26586996 . + . gene_id "cufflinks_star_at.23555";tr Chr5 Cufflinks exon 26587084 26587202 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.1"; Chr5 Cufflinks exon 26587287 26587345 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.1"; Chr5 Cufflinks exon 26587427 26587773 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.1"; -Chr5 Cufflinks transcript 26584930 26587773 924 + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.3";exon_number "1";frac "0.375174";conf_hi "1.958631";cov "53.341251";FPKM "1.7593697181";conf_lo "1.561990"; +Chr5 Cufflinks transcript 26584930 26587773 924 + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.3";exon_number "1";FPKM "1.7593697181";conf_hi "1.958631";frac "0.375174";cov "53.341251";conf_lo "1.561990"; Chr5 Cufflinks exon 26584930 26585023 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.3"; Chr5 Cufflinks exon 26585220 26585273 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.3"; Chr5 Cufflinks exon 26585345 26585889 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.3"; @@ -31,11 +46,11 @@ Chr5 Cufflinks exon 26586934 26586996 . + . gene_id "cufflinks_star_at.23555";tr Chr5 Cufflinks exon 26587084 26587202 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.3"; Chr5 Cufflinks exon 26587287 26587345 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.3"; Chr5 Cufflinks exon 26587427 26587773 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.3"; -Chr5 Cufflinks transcript 26586921 26587773 920 + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.4";exon_number "1";frac "0.110253";conf_hi "2.117981";cov "53.138003";FPKM "1.7526659316";conf_lo "1.392156"; +Chr5 Cufflinks transcript 26586921 26587773 920 + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.4";exon_number "1";FPKM "1.7526659316";conf_hi "2.117981";frac "0.110253";cov "53.138003";conf_lo "1.392156"; Chr5 Cufflinks exon 26586921 26587202 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.4"; Chr5 Cufflinks exon 26587287 26587345 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.4"; Chr5 Cufflinks exon 26587427 26587773 . + . gene_id "cufflinks_star_at.23555";transcript_id "cufflinks_star_at.23555.4"; -Chr5 Cufflinks transcript 26588405 26592252 1000 + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.2";exon_number "1";frac "0.473043";conf_hi "2.205813";cov "55.910385";FPKM "2.0258691952";conf_lo "1.844627"; +Chr5 Cufflinks transcript 26588405 26592252 1000 + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.2";exon_number "1";FPKM "2.0258691952";conf_hi "2.205813";frac "0.473043";cov "55.910385";conf_lo "1.844627"; Chr5 Cufflinks exon 26588405 26588625 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.2"; Chr5 Cufflinks exon 26589196 26589279 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.2"; Chr5 Cufflinks exon 26589386 26590167 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.2"; @@ -47,7 +62,7 @@ Chr5 Cufflinks exon 26591174 26591236 . + . gene_id "cufflinks_star_at.23563";tr Chr5 Cufflinks exon 26591324 26591442 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.2"; Chr5 Cufflinks exon 26591514 26591578 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.2"; Chr5 Cufflinks exon 26591681 26592252 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.2"; -Chr5 Cufflinks transcript 26588405 26592252 533 + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.3";exon_number "1";frac "0.241964";conf_hi "1.208336";cov "29.820862";FPKM "1.0805356718";conf_lo "0.952769"; +Chr5 Cufflinks transcript 26588405 26592252 533 + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.3";exon_number "1";FPKM "1.0805356718";conf_hi "1.208336";frac "0.241964";cov "29.820862";conf_lo "0.952769"; Chr5 Cufflinks exon 26588405 26588625 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.3"; Chr5 Cufflinks exon 26589196 26589279 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.3"; Chr5 Cufflinks exon 26589386 26590167 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.3"; @@ -60,7 +75,7 @@ Chr5 Cufflinks exon 26591324 26591442 . + . gene_id "cufflinks_star_at.23563";tr Chr5 Cufflinks exon 26591520 26591578 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.3"; Chr5 Cufflinks exon 26591681 26591845 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.3"; Chr5 Cufflinks exon 26591937 26592252 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.3"; -Chr5 Cufflinks transcript 26588405 26592252 602 + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.1";exon_number "1";frac "0.284993";conf_hi "1.369316";cov "33.679735";FPKM "1.2203589267";conf_lo "1.072667"; +Chr5 Cufflinks transcript 26588405 26592252 602 + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.1";exon_number "1";FPKM "1.2203589267";conf_hi "1.369316";frac "0.284993";cov "33.679735";conf_lo "1.072667"; Chr5 Cufflinks exon 26588405 26588625 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.1"; Chr5 Cufflinks exon 26589196 26589279 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.1"; Chr5 Cufflinks exon 26589386 26590167 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.1"; @@ -72,7 +87,7 @@ Chr5 Cufflinks exon 26591174 26591236 . + . gene_id "cufflinks_star_at.23563";tr Chr5 Cufflinks exon 26591324 26591442 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.1"; Chr5 Cufflinks exon 26591520 26591578 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.1"; Chr5 Cufflinks exon 26591681 26592252 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.1"; -Chr5 Cufflinks transcript 26592683 26595742 1000 + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.4";exon_number "1";frac "1.000000";conf_hi "7.204232";cov "152.597235";FPKM "6.1787058990";conf_lo "6.431308"; +Chr5 Cufflinks transcript 26592683 26595742 1000 + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.4";exon_number "1";FPKM "6.1787058990";conf_hi "7.204232";frac "1.000000";cov "152.597235";conf_lo "6.431308"; Chr5 Cufflinks exon 26592683 26593365 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.4"; Chr5 Cufflinks exon 26593449 26593836 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.4"; Chr5 Cufflinks exon 26593930 26594062 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.4"; @@ -82,7 +97,7 @@ Chr5 Cufflinks exon 26594569 26594772 . + . gene_id "cufflinks_star_at.23563";tr Chr5 Cufflinks exon 26594860 26594922 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.4"; Chr5 Cufflinks exon 26595003 26595268 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.4"; Chr5 Cufflinks exon 26595366 26595742 . + . gene_id "cufflinks_star_at.23563";transcript_id "cufflinks_star_at.23563.4"; -Chr5 Cufflinks transcript 26599401 26601707 1000 + . gene_id "cufflinks_star_at.23556";transcript_id "cufflinks_star_at.23556.1";exon_number "1";frac "1.000000";conf_hi "0.219626";cov "3.451294";FPKM "0.1376858947";conf_lo "0.069881"; +Chr5 Cufflinks transcript 26599401 26601707 1000 + . gene_id "cufflinks_star_at.23556";transcript_id "cufflinks_star_at.23556.1";exon_number "1";FPKM "0.1376858947";conf_hi "0.219626";frac "1.000000";cov "3.451294";conf_lo "0.069881"; Chr5 Cufflinks exon 26599401 26599654 . + . gene_id "cufflinks_star_at.23556";transcript_id "cufflinks_star_at.23556.1"; Chr5 Cufflinks exon 26599767 26600053 . + . gene_id "cufflinks_star_at.23556";transcript_id "cufflinks_star_at.23556.1"; Chr5 Cufflinks exon 26600151 26600394 . + . gene_id "cufflinks_star_at.23556";transcript_id "cufflinks_star_at.23556.1"; @@ -91,3 +106,22 @@ Chr5 Cufflinks exon 26600696 26600908 . + . gene_id "cufflinks_star_at.23556";tr Chr5 Cufflinks exon 26600987 26601049 . + . gene_id "cufflinks_star_at.23556";transcript_id "cufflinks_star_at.23556.1"; Chr5 Cufflinks exon 26601139 26601316 . + . gene_id "cufflinks_star_at.23556";transcript_id "cufflinks_star_at.23556.1"; Chr5 Cufflinks exon 26601398 26601707 . + . gene_id "cufflinks_star_at.23556";transcript_id "cufflinks_star_at.23556.1"; +Chr5 Cufflinks transcript 26603037 26604446 1000 + . gene_id "cufflinks_star_at.23557";transcript_id "cufflinks_star_at.23557.1";exon_number "1";FPKM "3.5747112578";conf_hi "2.422433";frac "0.052598";cov "105.000605";conf_lo "1.819779"; +Chr5 Cufflinks exon 26603037 26604446 . + . gene_id "cufflinks_star_at.23557";transcript_id "cufflinks_star_at.23557.1"; +Chr5 Cufflinks transcript 26603174 26604375 1000 - . gene_id "cufflinks_star_at.23558";transcript_id "cufflinks_star_at.23558.1";exon_number "1";FPKM "51.0371041951";conf_hi "53.168644";frac "0.947402";cov "1499.121582";conf_lo "49.812967"; +Chr5 Cufflinks exon 26603174 26603638 . - . gene_id "cufflinks_star_at.23558";transcript_id "cufflinks_star_at.23558.1"; +Chr5 Cufflinks exon 26603727 26604375 . - . gene_id "cufflinks_star_at.23558";transcript_id "cufflinks_star_at.23558.1"; +Chr5 Cufflinks transcript 26608458 26608780 1000 + . gene_id "cufflinks_star_at.23559";transcript_id "cufflinks_star_at.23559.1";exon_number "1";FPKM "6.3627773331";conf_hi "1.805438";frac "1.000000";cov "159.117719";conf_lo "0.954303"; +Chr5 Cufflinks exon 26608458 26608780 . + . gene_id "cufflinks_star_at.23559";transcript_id "cufflinks_star_at.23559.1"; +Chr5 Cufflinks transcript 26609366 26610543 1000 - . gene_id "cufflinks_star_at.23560";transcript_id "cufflinks_star_at.23560.1";exon_number "1";FPKM "1.7074649577";conf_hi "1.980157";frac "1.000000";cov "44.313052";conf_lo "1.435614"; +Chr5 Cufflinks exon 26609366 26610543 . - . gene_id "cufflinks_star_at.23560";transcript_id "cufflinks_star_at.23560.1"; +Chr5 Cufflinks transcript 26611509 26612012 1000 - . gene_id "cufflinks_star_at.23561";transcript_id "cufflinks_star_at.23561.1";exon_number "1";FPKM "1.3859792090";conf_hi "1.537232";frac "1.000000";cov "34.382718";conf_lo "0.793410"; +Chr5 Cufflinks exon 26611509 26612012 . - . gene_id "cufflinks_star_at.23561";transcript_id "cufflinks_star_at.23561.1"; +Chr5 Cufflinks transcript 26612165 26614294 940 - . gene_id "cufflinks_star_at.23562";transcript_id "cufflinks_star_at.23562.1";exon_number "1";FPKM "0.1960556387";conf_hi "0.288767";frac "0.550493";cov "4.827450";conf_lo "0.096256"; +Chr5 Cufflinks exon 26612165 26612722 . - . gene_id "cufflinks_star_at.23562";transcript_id "cufflinks_star_at.23562.1"; +Chr5 Cufflinks exon 26612846 26613194 . - . gene_id "cufflinks_star_at.23562";transcript_id "cufflinks_star_at.23562.1"; +Chr5 Cufflinks exon 26613900 26614294 . - . gene_id "cufflinks_star_at.23562";transcript_id "cufflinks_star_at.23562.1"; +Chr5 Cufflinks transcript 26612165 26614294 1000 - . gene_id "cufflinks_star_at.23562";transcript_id "cufflinks_star_at.23562.2";exon_number "1";FPKM "0.2083702932";conf_hi "0.325740";frac "0.449507";cov "5.130672";conf_lo "0.100228"; +Chr5 Cufflinks exon 26612165 26612727 . - . gene_id "cufflinks_star_at.23562";transcript_id "cufflinks_star_at.23562.2"; +Chr5 Cufflinks exon 26612846 26612932 . - . gene_id "cufflinks_star_at.23562";transcript_id "cufflinks_star_at.23562.2"; +Chr5 Cufflinks exon 26613900 26614294 . - . gene_id "cufflinks_star_at.23562";transcript_id "cufflinks_star_at.23562.2"; diff --git a/sample_data/stringtie.gtf b/sample_data/stringtie.gtf index 6a335325a..c4a51207c 100644 --- a/sample_data/stringtie.gtf +++ b/sample_data/stringtie.gtf @@ -1,3 +1,8 @@ +Chr5 StringTie transcript 26581218 26581531 1000 + . gene_id "Stringtie_STAR.21709";transcript_id "Stringtie_STAR.21709.1";exon_number "1";cov "7.034235"; +Chr5 StringTie exon 26581218 26581531 . + . gene_id "Stringtie_STAR.21709";transcript_id "Stringtie_STAR.21709.1"; +Chr5 StringTie transcript 26581218 26583874 1000 - . gene_id "Stringtie_STAR.21723";transcript_id "Stringtie_STAR.21723.1";exon_number "1";cov "10.963277"; +Chr5 StringTie exon 26581218 26581528 . - . gene_id "Stringtie_STAR.21723";transcript_id "Stringtie_STAR.21723.1"; +Chr5 StringTie exon 26583335 26583874 . - . gene_id "Stringtie_STAR.21723";transcript_id "Stringtie_STAR.21723.1"; Chr5 StringTie transcript 26584796 26587912 1000 + . gene_id "Stringtie_STAR.21710";transcript_id "Stringtie_STAR.21710.1";exon_number "1";cov "25.165945"; Chr5 StringTie exon 26584796 26584879 . + . gene_id "Stringtie_STAR.21710";transcript_id "Stringtie_STAR.21710.1"; Chr5 StringTie exon 26585220 26585273 . + . gene_id "Stringtie_STAR.21710";transcript_id "Stringtie_STAR.21710.1"; @@ -202,3 +207,6 @@ Chr5 StringTie exon 26600696 26600908 . + . gene_id "Stringtie_STAR.21710";trans Chr5 StringTie exon 26600987 26601049 . + . gene_id "Stringtie_STAR.21710";transcript_id "Stringtie_STAR.21710.16"; Chr5 StringTie exon 26601139 26601316 . + . gene_id "Stringtie_STAR.21710";transcript_id "Stringtie_STAR.21710.16"; Chr5 StringTie exon 26601398 26601453 . + . gene_id "Stringtie_STAR.21710";transcript_id "Stringtie_STAR.21710.16"; +Chr5 StringTie transcript 26603065 26604456 1000 - . gene_id "Stringtie_STAR.21713";transcript_id "Stringtie_STAR.21713.1";exon_number "1";cov "1326.593506"; +Chr5 StringTie exon 26603065 26603638 . - . gene_id "Stringtie_STAR.21713";transcript_id "Stringtie_STAR.21713.1"; +Chr5 StringTie exon 26603727 26604456 . - . gene_id "Stringtie_STAR.21713";transcript_id "Stringtie_STAR.21713.1"; diff --git a/sample_data/trinity.gtf b/sample_data/trinity.gtf index b6d31b281..744642a89 100644 --- a/sample_data/trinity.gtf +++ b/sample_data/trinity.gtf @@ -1,144 +1,182 @@ -Chr5 trinity transcript 26584173 26584464 100 - . gene_id "c3_g1_i2.path1.181";transcript_id "c3_g1_i2.mrna1.181";gene_name "c3_g1_i2"; -Chr5 trinity exon 26584173 26584278 . - . gene_id "c3_g1_i2.path1.181";transcript_id "c3_g1_i2.mrna1.181"; -Chr5 trinity exon 26584358 26584464 . - . gene_id "c3_g1_i2.path1.181";transcript_id "c3_g1_i2.mrna1.181"; -Chr5 trinity transcript 26584173 26584464 99 + . gene_id "c3_g1_i1.path1.716";transcript_id "c3_g1_i1.mrna1.716";gene_name "c3_g1_i1"; -Chr5 trinity exon 26584173 26584464 . + . gene_id "c3_g1_i1.path1.716";transcript_id "c3_g1_i1.mrna1.716"; -Chr5 trinity transcript 26584797 26595528 100 + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19";gene_name "c58_g1_i3"; -Chr5 trinity exon 26584797 26584879 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; -Chr5 trinity exon 26585220 26585273 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; -Chr5 trinity exon 26585345 26585889 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; -Chr5 trinity exon 26585982 26586294 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; -Chr5 trinity exon 26586420 26586524 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; -Chr5 trinity exon 26586638 26586850 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; -Chr5 trinity exon 26586934 26586996 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; -Chr5 trinity exon 26587084 26587202 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; -Chr5 trinity exon 26587287 26587345 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; -Chr5 trinity exon 26587427 26587472 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; -Chr5 trinity exon 26595411 26595528 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; -Chr5 trinity transcript 26585507 26586850 99 + . gene_id "c58_g1_i2.path1.35";transcript_id "c58_g1_i2.mrna1.35";gene_name "c58_g1_i2"; -Chr5 trinity exon 26585507 26585889 . + . gene_id "c58_g1_i2.path1.35";transcript_id "c58_g1_i2.mrna1.35"; -Chr5 trinity exon 26585982 26586102 . + . gene_id "c58_g1_i2.path1.35";transcript_id "c58_g1_i2.mrna1.35"; -Chr5 trinity exon 26586217 26586294 . + . gene_id "c58_g1_i2.path1.35";transcript_id "c58_g1_i2.mrna1.35"; -Chr5 trinity exon 26586420 26586524 . + . gene_id "c58_g1_i2.path1.35";transcript_id "c58_g1_i2.mrna1.35"; -Chr5 trinity exon 26586638 26586850 . + . gene_id "c58_g1_i2.path1.35";transcript_id "c58_g1_i2.mrna1.35"; -Chr5 trinity transcript 26586851 26595457 100 + . gene_id "c58_g1_i1.path1.190";transcript_id "c58_g1_i1.mrna1.190";gene_name "c58_g1_i1"; -Chr5 trinity exon 26586851 26586996 . + . gene_id "c58_g1_i1.path1.190";transcript_id "c58_g1_i1.mrna1.190"; -Chr5 trinity exon 26587084 26587202 . + . gene_id "c58_g1_i1.path1.190";transcript_id "c58_g1_i1.mrna1.190"; -Chr5 trinity exon 26587287 26587345 . + . gene_id "c58_g1_i1.path1.190";transcript_id "c58_g1_i1.mrna1.190"; -Chr5 trinity exon 26587427 26587472 . + . gene_id "c58_g1_i1.path1.190";transcript_id "c58_g1_i1.mrna1.190"; -Chr5 trinity exon 26595411 26595457 . + . gene_id "c58_g1_i1.path1.190";transcript_id "c58_g1_i1.mrna1.190"; -Chr5 trinity transcript 26586851 26595457 99 + . gene_id "c58_g1_i7.path1.1";transcript_id "c58_g1_i7.mrna1.1";gene_name "c58_g1_i7"; -Chr5 trinity exon 26586851 26587202 . + . gene_id "c58_g1_i7.path1.1";transcript_id "c58_g1_i7.mrna1.1"; -Chr5 trinity exon 26587287 26587345 . + . gene_id "c58_g1_i7.path1.1";transcript_id "c58_g1_i7.mrna1.1"; -Chr5 trinity exon 26587427 26587472 . + . gene_id "c58_g1_i7.path1.1";transcript_id "c58_g1_i7.mrna1.1"; -Chr5 trinity exon 26595411 26595457 . + . gene_id "c58_g1_i7.path1.1";transcript_id "c58_g1_i7.mrna1.1"; -Chr5 trinity transcript 26587455 26587912 99 + . gene_id "c108_g1_i1.path1.104";transcript_id "c108_g1_i1.mrna1.104";gene_name "c108_g1_i1"; -Chr5 trinity exon 26587455 26587912 . + . gene_id "c108_g1_i1.path1.104";transcript_id "c108_g1_i1.mrna1.104"; -Chr5 trinity transcript 26588408 26594772 100 + . gene_id "c58_g1_i11.path1";transcript_id "c58_g1_i11.mrna1";gene_name "c58_g1_i11"; -Chr5 trinity exon 26588408 26588625 . + . gene_id "c58_g1_i11.path1";transcript_id "c58_g1_i11.mrna1"; -Chr5 trinity exon 26589196 26589279 . + . gene_id "c58_g1_i11.path1";transcript_id "c58_g1_i11.mrna1"; -Chr5 trinity exon 26589386 26590167 . + . gene_id "c58_g1_i11.path1";transcript_id "c58_g1_i11.mrna1"; -Chr5 trinity exon 26590261 26590393 . + . gene_id "c58_g1_i11.path1";transcript_id "c58_g1_i11.mrna1"; -Chr5 trinity exon 26594172 26594243 . + . gene_id "c58_g1_i11.path1";transcript_id "c58_g1_i11.mrna1"; -Chr5 trinity exon 26594318 26594772 . + . gene_id "c58_g1_i11.path1";transcript_id "c58_g1_i11.mrna1"; -Chr5 trinity transcript 26588408 26598230 100 + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3";gene_name "c58_g1_i5"; -Chr5 trinity exon 26588408 26588625 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; -Chr5 trinity exon 26589196 26589279 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; -Chr5 trinity exon 26589386 26590167 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; -Chr5 trinity exon 26590261 26590393 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; -Chr5 trinity exon 26590495 26590566 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; -Chr5 trinity exon 26590641 26590739 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; -Chr5 trinity exon 26590880 26591092 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; -Chr5 trinity exon 26591174 26591236 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; -Chr5 trinity exon 26591324 26591442 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; -Chr5 trinity exon 26591520 26591578 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; -Chr5 trinity exon 26591681 26592026 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; -Chr5 trinity exon 26595712 26598230 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; -Chr5 trinity transcript 26588408 26601049 100 + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1";gene_name "c58_g1_i10"; -Chr5 trinity exon 26588408 26588625 . + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1"; -Chr5 trinity exon 26589196 26589279 . + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1"; -Chr5 trinity exon 26589386 26590167 . + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1"; -Chr5 trinity exon 26590261 26590393 . + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1"; -Chr5 trinity exon 26594172 26594243 . + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1"; -Chr5 trinity exon 26594318 26594416 . + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1"; -Chr5 trinity exon 26594569 26594772 . + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1"; -Chr5 trinity exon 26594860 26594877 . + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1"; -Chr5 trinity exon 26601005 26601049 . + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1"; -Chr5 trinity transcript 26588603 26589218 100 + . gene_id "c68_g1_i1.path1.173";transcript_id "c68_g1_i1.mrna1.173";gene_name "c68_g1_i1"; -Chr5 trinity exon 26588603 26588854 . + . gene_id "c68_g1_i1.path1.173";transcript_id "c68_g1_i1.mrna1.173"; -Chr5 trinity exon 26589196 26589218 . + . gene_id "c68_g1_i1.path1.173";transcript_id "c68_g1_i1.mrna1.173"; -Chr5 trinity transcript 26591174 26595528 100 + . gene_id "c58_g1_i11.path2";transcript_id "c58_g1_i11.mrna2";gene_name "c58_g1_i11"; -Chr5 trinity exon 26591174 26591236 . + . gene_id "c58_g1_i11.path2";transcript_id "c58_g1_i11.mrna2"; -Chr5 trinity exon 26591324 26591442 . + . gene_id "c58_g1_i11.path2";transcript_id "c58_g1_i11.mrna2"; -Chr5 trinity exon 26591520 26591578 . + . gene_id "c58_g1_i11.path2";transcript_id "c58_g1_i11.mrna2"; -Chr5 trinity exon 26591681 26591770 . + . gene_id "c58_g1_i11.path2";transcript_id "c58_g1_i11.mrna2"; -Chr5 trinity exon 26595456 26595528 . + . gene_id "c58_g1_i11.path2";transcript_id "c58_g1_i11.mrna2"; -Chr5 trinity transcript 26591324 26591981 100 + . gene_id "c58_g1_i8.path2";transcript_id "c58_g1_i8.mrna2";gene_name "c58_g1_i8"; -Chr5 trinity exon 26591324 26591442 . + . gene_id "c58_g1_i8.path2";transcript_id "c58_g1_i8.mrna2"; -Chr5 trinity exon 26591520 26591578 . + . gene_id "c58_g1_i8.path2";transcript_id "c58_g1_i8.mrna2"; -Chr5 trinity exon 26591681 26591845 . + . gene_id "c58_g1_i8.path2";transcript_id "c58_g1_i8.mrna2"; -Chr5 trinity exon 26591942 26591981 . + . gene_id "c58_g1_i8.path2";transcript_id "c58_g1_i8.mrna2"; -Chr5 trinity transcript 26591324 26591981 100 + . gene_id "c58_g1_i10.path2";transcript_id "c58_g1_i10.mrna2";gene_name "c58_g1_i10"; -Chr5 trinity exon 26591324 26591442 . + . gene_id "c58_g1_i10.path2";transcript_id "c58_g1_i10.mrna2"; -Chr5 trinity exon 26591520 26591578 . + . gene_id "c58_g1_i10.path2";transcript_id "c58_g1_i10.mrna2"; -Chr5 trinity exon 26591681 26591845 . + . gene_id "c58_g1_i10.path2";transcript_id "c58_g1_i10.mrna2"; -Chr5 trinity exon 26591942 26591981 . + . gene_id "c58_g1_i10.path2";transcript_id "c58_g1_i10.mrna2"; -Chr5 trinity transcript 26591981 26594589 100 + . gene_id "c58_g1_i12.path1";transcript_id "c58_g1_i12.mrna1";gene_name "c58_g1_i12"; -Chr5 trinity exon 26591981 26592002 . + . gene_id "c58_g1_i12.path1";transcript_id "c58_g1_i12.mrna1"; -Chr5 trinity exon 26592528 26593365 . + . gene_id "c58_g1_i12.path1";transcript_id "c58_g1_i12.mrna1"; -Chr5 trinity exon 26593449 26593836 . + . gene_id "c58_g1_i12.path1";transcript_id "c58_g1_i12.mrna1"; -Chr5 trinity exon 26593930 26594062 . + . gene_id "c58_g1_i12.path1";transcript_id "c58_g1_i12.mrna1"; -Chr5 trinity exon 26594172 26594243 . + . gene_id "c58_g1_i12.path1";transcript_id "c58_g1_i12.mrna1"; -Chr5 trinity exon 26594318 26594589 . + . gene_id "c58_g1_i12.path1";transcript_id "c58_g1_i12.mrna1"; -Chr5 trinity transcript 26591981 26595084 100 + . gene_id "c58_g1_i9.path1";transcript_id "c58_g1_i9.mrna1";gene_name "c58_g1_i9"; -Chr5 trinity exon 26591981 26592002 . + . gene_id "c58_g1_i9.path1";transcript_id "c58_g1_i9.mrna1"; -Chr5 trinity exon 26592528 26593365 . + . gene_id "c58_g1_i9.path1";transcript_id "c58_g1_i9.mrna1"; -Chr5 trinity exon 26593449 26593836 . + . gene_id "c58_g1_i9.path1";transcript_id "c58_g1_i9.mrna1"; -Chr5 trinity exon 26593930 26594062 . + . gene_id "c58_g1_i9.path1";transcript_id "c58_g1_i9.mrna1"; -Chr5 trinity exon 26594172 26594243 . + . gene_id "c58_g1_i9.path1";transcript_id "c58_g1_i9.mrna1"; -Chr5 trinity exon 26594318 26594416 . + . gene_id "c58_g1_i9.path1";transcript_id "c58_g1_i9.mrna1"; -Chr5 trinity exon 26594569 26594922 . + . gene_id "c58_g1_i9.path1";transcript_id "c58_g1_i9.mrna1"; -Chr5 trinity exon 26595003 26595084 . + . gene_id "c58_g1_i9.path1";transcript_id "c58_g1_i9.mrna1"; -Chr5 trinity transcript 26591981 26598230 100 + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6";gene_name "c58_g1_i4"; -Chr5 trinity exon 26591981 26592002 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; -Chr5 trinity exon 26592528 26593365 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; -Chr5 trinity exon 26593449 26593836 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; -Chr5 trinity exon 26593930 26594062 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; -Chr5 trinity exon 26594172 26594243 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; -Chr5 trinity exon 26594318 26594416 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; -Chr5 trinity exon 26594569 26594772 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; -Chr5 trinity exon 26594860 26594922 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; -Chr5 trinity exon 26595003 26595121 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; -Chr5 trinity exon 26595210 26595268 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; -Chr5 trinity exon 26595366 26598230 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; -Chr5 trinity transcript 26591981 26598230 100 + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3";gene_name "c58_g1_i6"; -Chr5 trinity exon 26591981 26592002 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; -Chr5 trinity exon 26592528 26593836 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; -Chr5 trinity exon 26593930 26594062 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; -Chr5 trinity exon 26594172 26594243 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; -Chr5 trinity exon 26594318 26594416 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; -Chr5 trinity exon 26594569 26594772 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; -Chr5 trinity exon 26594860 26594922 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; -Chr5 trinity exon 26595003 26595121 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; -Chr5 trinity exon 26595210 26595268 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; -Chr5 trinity exon 26595366 26598230 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; -Chr5 trinity transcript 26591981 26601049 100 + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1";gene_name "c58_g1_i8"; -Chr5 trinity exon 26591981 26592002 . + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1"; -Chr5 trinity exon 26592528 26593365 . + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1"; -Chr5 trinity exon 26593449 26593836 . + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1"; -Chr5 trinity exon 26593930 26594062 . + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1"; -Chr5 trinity exon 26594172 26594243 . + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1"; -Chr5 trinity exon 26594318 26594416 . + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1"; -Chr5 trinity exon 26594569 26594772 . + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1"; -Chr5 trinity exon 26594860 26594877 . + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1"; -Chr5 trinity exon 26601005 26601049 . + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1"; -Chr5 trinity transcript 26592043 26592421 96 + . gene_id "c113_g1_i1.path1.94";transcript_id "c113_g1_i1.mrna1.94";gene_name "c113_g1_i1"; -Chr5 trinity exon 26592043 26592421 . + . gene_id "c113_g1_i1.path1.94";transcript_id "c113_g1_i1.mrna1.94"; -Chr5 trinity transcript 26599401 26600244 99 + . gene_id "c77_g1_i1.path1.153";transcript_id "c77_g1_i1.mrna1.153";gene_name "c77_g1_i1"; -Chr5 trinity exon 26599401 26599654 . + . gene_id "c77_g1_i1.path1.153";transcript_id "c77_g1_i1.mrna1.153"; -Chr5 trinity exon 26599767 26600053 . + . gene_id "c77_g1_i1.path1.153";transcript_id "c77_g1_i1.mrna1.153"; -Chr5 trinity exon 26600151 26600244 . + . gene_id "c77_g1_i1.path1.153";transcript_id "c77_g1_i1.mrna1.153"; -Chr5 trinity transcript 26600325 26600815 98 + . gene_id "c109_g1_i1.path1.102";transcript_id "c109_g1_i1.mrna1.102";gene_name "c109_g1_i1"; -Chr5 trinity exon 26600325 26600394 . + . gene_id "c109_g1_i1.path1.102";transcript_id "c109_g1_i1.mrna1.102"; -Chr5 trinity exon 26600497 26600616 . + . gene_id "c109_g1_i1.path1.102";transcript_id "c109_g1_i1.mrna1.102"; -Chr5 trinity exon 26600696 26600815 . + . gene_id "c109_g1_i1.path1.102";transcript_id "c109_g1_i1.mrna1.102"; +Chr5 tair10 transcript 26578496 26579563 95 - . gene_id "c73_g1_i1.path1.160";transcript_id "c73_g1_i1.mrna1.160";gene_name "c73_g1_i1"; +Chr5 tair10 exon 26578496 26578518 . - . gene_id "c73_g1_i1.path1.160";transcript_id "c73_g1_i1.mrna1.160"; +Chr5 tair10 exon 26579301 26579563 . - . gene_id "c73_g1_i1.path1.160";transcript_id "c73_g1_i1.mrna1.160"; +Chr5 tair10 transcript 26581225 26583874 99 - . gene_id "c11_g1_i2.path1.111";transcript_id "c11_g1_i2.mrna1.111";gene_name "c11_g1_i2"; +Chr5 tair10 exon 26581225 26581528 . - . gene_id "c11_g1_i2.path1.111";transcript_id "c11_g1_i2.mrna1.111"; +Chr5 tair10 exon 26583335 26583874 . - . gene_id "c11_g1_i2.path1.111";transcript_id "c11_g1_i2.mrna1.111"; +Chr5 tair10 transcript 26583216 26583874 99 - . gene_id "c11_g1_i1.path1.350";transcript_id "c11_g1_i1.mrna1.350";gene_name "c11_g1_i1"; +Chr5 tair10 exon 26583216 26583874 . - . gene_id "c11_g1_i1.path1.350";transcript_id "c11_g1_i1.mrna1.350"; +Chr5 tair10 transcript 26584173 26584464 100 - . gene_id "c3_g1_i2.path1.181";transcript_id "c3_g1_i2.mrna1.181";gene_name "c3_g1_i2"; +Chr5 tair10 exon 26584173 26584278 . - . gene_id "c3_g1_i2.path1.181";transcript_id "c3_g1_i2.mrna1.181"; +Chr5 tair10 exon 26584358 26584464 . - . gene_id "c3_g1_i2.path1.181";transcript_id "c3_g1_i2.mrna1.181"; +Chr5 tair10 transcript 26584173 26584464 99 + . gene_id "c3_g1_i1.path1.716";transcript_id "c3_g1_i1.mrna1.716";gene_name "c3_g1_i1"; +Chr5 tair10 exon 26584173 26584464 . + . gene_id "c3_g1_i1.path1.716";transcript_id "c3_g1_i1.mrna1.716"; +Chr5 tair10 transcript 26584797 26595528 100 + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19";gene_name "c58_g1_i3"; +Chr5 tair10 exon 26584797 26584879 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; +Chr5 tair10 exon 26585220 26585273 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; +Chr5 tair10 exon 26585345 26585889 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; +Chr5 tair10 exon 26585982 26586294 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; +Chr5 tair10 exon 26586420 26586524 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; +Chr5 tair10 exon 26586638 26586850 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; +Chr5 tair10 exon 26586934 26586996 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; +Chr5 tair10 exon 26587084 26587202 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; +Chr5 tair10 exon 26587287 26587345 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; +Chr5 tair10 exon 26587427 26587472 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; +Chr5 tair10 exon 26595411 26595528 . + . gene_id "c58_g1_i3.path1.19";transcript_id "c58_g1_i3.mrna1.19"; +Chr5 tair10 transcript 26585507 26586850 99 + . gene_id "c58_g1_i2.path1.35";transcript_id "c58_g1_i2.mrna1.35";gene_name "c58_g1_i2"; +Chr5 tair10 exon 26585507 26585889 . + . gene_id "c58_g1_i2.path1.35";transcript_id "c58_g1_i2.mrna1.35"; +Chr5 tair10 exon 26585982 26586102 . + . gene_id "c58_g1_i2.path1.35";transcript_id "c58_g1_i2.mrna1.35"; +Chr5 tair10 exon 26586217 26586294 . + . gene_id "c58_g1_i2.path1.35";transcript_id "c58_g1_i2.mrna1.35"; +Chr5 tair10 exon 26586420 26586524 . + . gene_id "c58_g1_i2.path1.35";transcript_id "c58_g1_i2.mrna1.35"; +Chr5 tair10 exon 26586638 26586850 . + . gene_id "c58_g1_i2.path1.35";transcript_id "c58_g1_i2.mrna1.35"; +Chr5 tair10 transcript 26586851 26595457 100 + . gene_id "c58_g1_i1.path1.190";transcript_id "c58_g1_i1.mrna1.190";gene_name "c58_g1_i1"; +Chr5 tair10 exon 26586851 26586996 . + . gene_id "c58_g1_i1.path1.190";transcript_id "c58_g1_i1.mrna1.190"; +Chr5 tair10 exon 26587084 26587202 . + . gene_id "c58_g1_i1.path1.190";transcript_id "c58_g1_i1.mrna1.190"; +Chr5 tair10 exon 26587287 26587345 . + . gene_id "c58_g1_i1.path1.190";transcript_id "c58_g1_i1.mrna1.190"; +Chr5 tair10 exon 26587427 26587472 . + . gene_id "c58_g1_i1.path1.190";transcript_id "c58_g1_i1.mrna1.190"; +Chr5 tair10 exon 26595411 26595457 . + . gene_id "c58_g1_i1.path1.190";transcript_id "c58_g1_i1.mrna1.190"; +Chr5 tair10 transcript 26586851 26595457 99 + . gene_id "c58_g1_i7.path1.1";transcript_id "c58_g1_i7.mrna1.1";gene_name "c58_g1_i7"; +Chr5 tair10 exon 26586851 26587202 . + . gene_id "c58_g1_i7.path1.1";transcript_id "c58_g1_i7.mrna1.1"; +Chr5 tair10 exon 26587287 26587345 . + . gene_id "c58_g1_i7.path1.1";transcript_id "c58_g1_i7.mrna1.1"; +Chr5 tair10 exon 26587427 26587472 . + . gene_id "c58_g1_i7.path1.1";transcript_id "c58_g1_i7.mrna1.1"; +Chr5 tair10 exon 26595411 26595457 . + . gene_id "c58_g1_i7.path1.1";transcript_id "c58_g1_i7.mrna1.1"; +Chr5 tair10 transcript 26587455 26587912 99 + . gene_id "c108_g1_i1.path1.104";transcript_id "c108_g1_i1.mrna1.104";gene_name "c108_g1_i1"; +Chr5 tair10 exon 26587455 26587912 . + . gene_id "c108_g1_i1.path1.104";transcript_id "c108_g1_i1.mrna1.104"; +Chr5 tair10 transcript 26588408 26594772 100 + . gene_id "c58_g1_i11.path1";transcript_id "c58_g1_i11.mrna1";gene_name "c58_g1_i11"; +Chr5 tair10 exon 26588408 26588625 . + . gene_id "c58_g1_i11.path1";transcript_id "c58_g1_i11.mrna1"; +Chr5 tair10 exon 26589196 26589279 . + . gene_id "c58_g1_i11.path1";transcript_id "c58_g1_i11.mrna1"; +Chr5 tair10 exon 26589386 26590167 . + . gene_id "c58_g1_i11.path1";transcript_id "c58_g1_i11.mrna1"; +Chr5 tair10 exon 26590261 26590393 . + . gene_id "c58_g1_i11.path1";transcript_id "c58_g1_i11.mrna1"; +Chr5 tair10 exon 26594172 26594243 . + . gene_id "c58_g1_i11.path1";transcript_id "c58_g1_i11.mrna1"; +Chr5 tair10 exon 26594318 26594772 . + . gene_id "c58_g1_i11.path1";transcript_id "c58_g1_i11.mrna1"; +Chr5 tair10 transcript 26588408 26598230 100 + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3";gene_name "c58_g1_i5"; +Chr5 tair10 exon 26588408 26588625 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; +Chr5 tair10 exon 26589196 26589279 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; +Chr5 tair10 exon 26589386 26590167 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; +Chr5 tair10 exon 26590261 26590393 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; +Chr5 tair10 exon 26590495 26590566 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; +Chr5 tair10 exon 26590641 26590739 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; +Chr5 tair10 exon 26590880 26591092 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; +Chr5 tair10 exon 26591174 26591236 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; +Chr5 tair10 exon 26591324 26591442 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; +Chr5 tair10 exon 26591520 26591578 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; +Chr5 tair10 exon 26591681 26592026 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; +Chr5 tair10 exon 26595712 26598230 . + . gene_id "c58_g1_i5.path1.3";transcript_id "c58_g1_i5.mrna1.3"; +Chr5 tair10 transcript 26588408 26601049 100 + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1";gene_name "c58_g1_i10"; +Chr5 tair10 exon 26588408 26588625 . + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1"; +Chr5 tair10 exon 26589196 26589279 . + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1"; +Chr5 tair10 exon 26589386 26590167 . + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1"; +Chr5 tair10 exon 26590261 26590393 . + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1"; +Chr5 tair10 exon 26594172 26594243 . + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1"; +Chr5 tair10 exon 26594318 26594416 . + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1"; +Chr5 tair10 exon 26594569 26594772 . + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1"; +Chr5 tair10 exon 26594860 26594877 . + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1"; +Chr5 tair10 exon 26601005 26601049 . + . gene_id "c58_g1_i10.path1";transcript_id "c58_g1_i10.mrna1"; +Chr5 tair10 transcript 26588603 26589218 100 + . gene_id "c68_g1_i1.path1.173";transcript_id "c68_g1_i1.mrna1.173";gene_name "c68_g1_i1"; +Chr5 tair10 exon 26588603 26588854 . + . gene_id "c68_g1_i1.path1.173";transcript_id "c68_g1_i1.mrna1.173"; +Chr5 tair10 exon 26589196 26589218 . + . gene_id "c68_g1_i1.path1.173";transcript_id "c68_g1_i1.mrna1.173"; +Chr5 tair10 transcript 26591174 26595528 100 + . gene_id "c58_g1_i11.path2";transcript_id "c58_g1_i11.mrna2";gene_name "c58_g1_i11"; +Chr5 tair10 exon 26591174 26591236 . + . gene_id "c58_g1_i11.path2";transcript_id "c58_g1_i11.mrna2"; +Chr5 tair10 exon 26591324 26591442 . + . gene_id "c58_g1_i11.path2";transcript_id "c58_g1_i11.mrna2"; +Chr5 tair10 exon 26591520 26591578 . + . gene_id "c58_g1_i11.path2";transcript_id "c58_g1_i11.mrna2"; +Chr5 tair10 exon 26591681 26591770 . + . gene_id "c58_g1_i11.path2";transcript_id "c58_g1_i11.mrna2"; +Chr5 tair10 exon 26595456 26595528 . + . gene_id "c58_g1_i11.path2";transcript_id "c58_g1_i11.mrna2"; +Chr5 tair10 transcript 26591324 26591981 100 + . gene_id "c58_g1_i8.path2";transcript_id "c58_g1_i8.mrna2";gene_name "c58_g1_i8"; +Chr5 tair10 exon 26591324 26591442 . + . gene_id "c58_g1_i8.path2";transcript_id "c58_g1_i8.mrna2"; +Chr5 tair10 exon 26591520 26591578 . + . gene_id "c58_g1_i8.path2";transcript_id "c58_g1_i8.mrna2"; +Chr5 tair10 exon 26591681 26591845 . + . gene_id "c58_g1_i8.path2";transcript_id "c58_g1_i8.mrna2"; +Chr5 tair10 exon 26591942 26591981 . + . gene_id "c58_g1_i8.path2";transcript_id "c58_g1_i8.mrna2"; +Chr5 tair10 transcript 26591324 26591981 100 + . gene_id "c58_g1_i10.path2";transcript_id "c58_g1_i10.mrna2";gene_name "c58_g1_i10"; +Chr5 tair10 exon 26591324 26591442 . + . gene_id "c58_g1_i10.path2";transcript_id "c58_g1_i10.mrna2"; +Chr5 tair10 exon 26591520 26591578 . + . gene_id "c58_g1_i10.path2";transcript_id "c58_g1_i10.mrna2"; +Chr5 tair10 exon 26591681 26591845 . + . gene_id "c58_g1_i10.path2";transcript_id "c58_g1_i10.mrna2"; +Chr5 tair10 exon 26591942 26591981 . + . gene_id "c58_g1_i10.path2";transcript_id "c58_g1_i10.mrna2"; +Chr5 tair10 transcript 26591981 26594589 100 + . gene_id "c58_g1_i12.path1";transcript_id "c58_g1_i12.mrna1";gene_name "c58_g1_i12"; +Chr5 tair10 exon 26591981 26592002 . + . gene_id "c58_g1_i12.path1";transcript_id "c58_g1_i12.mrna1"; +Chr5 tair10 exon 26592528 26593365 . + . gene_id "c58_g1_i12.path1";transcript_id "c58_g1_i12.mrna1"; +Chr5 tair10 exon 26593449 26593836 . + . gene_id "c58_g1_i12.path1";transcript_id "c58_g1_i12.mrna1"; +Chr5 tair10 exon 26593930 26594062 . + . gene_id "c58_g1_i12.path1";transcript_id "c58_g1_i12.mrna1"; +Chr5 tair10 exon 26594172 26594243 . + . gene_id "c58_g1_i12.path1";transcript_id "c58_g1_i12.mrna1"; +Chr5 tair10 exon 26594318 26594589 . + . gene_id "c58_g1_i12.path1";transcript_id "c58_g1_i12.mrna1"; +Chr5 tair10 transcript 26591981 26595084 100 + . gene_id "c58_g1_i9.path1";transcript_id "c58_g1_i9.mrna1";gene_name "c58_g1_i9"; +Chr5 tair10 exon 26591981 26592002 . + . gene_id "c58_g1_i9.path1";transcript_id "c58_g1_i9.mrna1"; +Chr5 tair10 exon 26592528 26593365 . + . gene_id "c58_g1_i9.path1";transcript_id "c58_g1_i9.mrna1"; +Chr5 tair10 exon 26593449 26593836 . + . gene_id "c58_g1_i9.path1";transcript_id "c58_g1_i9.mrna1"; +Chr5 tair10 exon 26593930 26594062 . + . gene_id "c58_g1_i9.path1";transcript_id "c58_g1_i9.mrna1"; +Chr5 tair10 exon 26594172 26594243 . + . gene_id "c58_g1_i9.path1";transcript_id "c58_g1_i9.mrna1"; +Chr5 tair10 exon 26594318 26594416 . + . gene_id "c58_g1_i9.path1";transcript_id "c58_g1_i9.mrna1"; +Chr5 tair10 exon 26594569 26594922 . + . gene_id "c58_g1_i9.path1";transcript_id "c58_g1_i9.mrna1"; +Chr5 tair10 exon 26595003 26595084 . + . gene_id "c58_g1_i9.path1";transcript_id "c58_g1_i9.mrna1"; +Chr5 tair10 transcript 26591981 26598230 100 + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6";gene_name "c58_g1_i4"; +Chr5 tair10 exon 26591981 26592002 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; +Chr5 tair10 exon 26592528 26593365 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; +Chr5 tair10 exon 26593449 26593836 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; +Chr5 tair10 exon 26593930 26594062 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; +Chr5 tair10 exon 26594172 26594243 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; +Chr5 tair10 exon 26594318 26594416 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; +Chr5 tair10 exon 26594569 26594772 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; +Chr5 tair10 exon 26594860 26594922 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; +Chr5 tair10 exon 26595003 26595121 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; +Chr5 tair10 exon 26595210 26595268 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; +Chr5 tair10 exon 26595366 26598230 . + . gene_id "c58_g1_i4.path1.6";transcript_id "c58_g1_i4.mrna1.6"; +Chr5 tair10 transcript 26591981 26598230 100 + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3";gene_name "c58_g1_i6"; +Chr5 tair10 exon 26591981 26592002 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; +Chr5 tair10 exon 26592528 26593836 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; +Chr5 tair10 exon 26593930 26594062 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; +Chr5 tair10 exon 26594172 26594243 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; +Chr5 tair10 exon 26594318 26594416 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; +Chr5 tair10 exon 26594569 26594772 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; +Chr5 tair10 exon 26594860 26594922 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; +Chr5 tair10 exon 26595003 26595121 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; +Chr5 tair10 exon 26595210 26595268 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; +Chr5 tair10 exon 26595366 26598230 . + . gene_id "c58_g1_i6.path1.3";transcript_id "c58_g1_i6.mrna1.3"; +Chr5 tair10 transcript 26591981 26601049 100 + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1";gene_name "c58_g1_i8"; +Chr5 tair10 exon 26591981 26592002 . + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1"; +Chr5 tair10 exon 26592528 26593365 . + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1"; +Chr5 tair10 exon 26593449 26593836 . + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1"; +Chr5 tair10 exon 26593930 26594062 . + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1"; +Chr5 tair10 exon 26594172 26594243 . + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1"; +Chr5 tair10 exon 26594318 26594416 . + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1"; +Chr5 tair10 exon 26594569 26594772 . + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1"; +Chr5 tair10 exon 26594860 26594877 . + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1"; +Chr5 tair10 exon 26601005 26601049 . + . gene_id "c58_g1_i8.path1";transcript_id "c58_g1_i8.mrna1"; +Chr5 tair10 transcript 26592043 26592421 96 + . gene_id "c113_g1_i1.path1.94";transcript_id "c113_g1_i1.mrna1.94";gene_name "c113_g1_i1"; +Chr5 tair10 exon 26592043 26592421 . + . gene_id "c113_g1_i1.path1.94";transcript_id "c113_g1_i1.mrna1.94"; +Chr5 tair10 transcript 26599401 26600244 99 + . gene_id "c77_g1_i1.path1.153";transcript_id "c77_g1_i1.mrna1.153";gene_name "c77_g1_i1"; +Chr5 tair10 exon 26599401 26599654 . + . gene_id "c77_g1_i1.path1.153";transcript_id "c77_g1_i1.mrna1.153"; +Chr5 tair10 exon 26599767 26600053 . + . gene_id "c77_g1_i1.path1.153";transcript_id "c77_g1_i1.mrna1.153"; +Chr5 tair10 exon 26600151 26600244 . + . gene_id "c77_g1_i1.path1.153";transcript_id "c77_g1_i1.mrna1.153"; +Chr5 tair10 transcript 26600325 26600815 98 + . gene_id "c109_g1_i1.path1.102";transcript_id "c109_g1_i1.mrna1.102";gene_name "c109_g1_i1"; +Chr5 tair10 exon 26600325 26600394 . + . gene_id "c109_g1_i1.path1.102";transcript_id "c109_g1_i1.mrna1.102"; +Chr5 tair10 exon 26600497 26600616 . + . gene_id "c109_g1_i1.path1.102";transcript_id "c109_g1_i1.mrna1.102"; +Chr5 tair10 exon 26600696 26600815 . + . gene_id "c109_g1_i1.path1.102";transcript_id "c109_g1_i1.mrna1.102"; +Chr5 tair10 transcript 26602733 26604736 98 - . gene_id "c60_g1_i1.path1.189";transcript_id "c60_g1_i1.mrna1.189";gene_name "c60_g1_i1"; +Chr5 tair10 exon 26602733 26603638 . - . gene_id "c60_g1_i1.path1.189";transcript_id "c60_g1_i1.mrna1.189"; +Chr5 tair10 exon 26603727 26604736 . - . gene_id "c60_g1_i1.path1.189";transcript_id "c60_g1_i1.mrna1.189"; +Chr5 tair10 transcript 26604728 26604970 99 - . gene_id "c115_g1_i1.path1.88";transcript_id "c115_g1_i1.mrna1.88";gene_name "c115_g1_i1"; +Chr5 tair10 exon 26604728 26604970 . - . gene_id "c115_g1_i1.path1.88";transcript_id "c115_g1_i1.mrna1.88"; +Chr5 tair10 transcript 26604953 26605502 99 + . gene_id "c152_g1_i1.path1.66";transcript_id "c152_g1_i1.mrna1.66";gene_name "c152_g1_i1"; +Chr5 tair10 exon 26604953 26605502 . + . gene_id "c152_g1_i1.path1.66";transcript_id "c152_g1_i1.mrna1.66"; +Chr5 tair10 transcript 26605481 26605955 99 + . gene_id "c21_g1_i1.path1.302";transcript_id "c21_g1_i1.mrna1.302";gene_name "c21_g1_i1"; +Chr5 tair10 exon 26605481 26605955 . + . gene_id "c21_g1_i1.path1.302";transcript_id "c21_g1_i1.mrna1.302"; +Chr5 tair10 transcript 26605932 26606539 99 + . gene_id "c41_g1_i1.path1.224";transcript_id "c41_g1_i1.mrna1.224";gene_name "c41_g1_i1"; +Chr5 tair10 exon 26605932 26606539 . + . gene_id "c41_g1_i1.path1.224";transcript_id "c41_g1_i1.mrna1.224"; +Chr5 tair10 transcript 26609249 26610543 99 + . gene_id "c6_g1_i1.path1.412";transcript_id "c6_g1_i1.mrna1.412";gene_name "c6_g1_i1"; +Chr5 tair10 exon 26609249 26610543 . + . gene_id "c6_g1_i1.path1.412";transcript_id "c6_g1_i1.mrna1.412"; +Chr5 tair10 transcript 26611512 26611831 99 - . gene_id "c74_g1_i1.path1.154";transcript_id "c74_g1_i1.mrna1.154";gene_name "c74_g1_i1"; +Chr5 tair10 exon 26611512 26611831 . - . gene_id "c74_g1_i1.path1.154";transcript_id "c74_g1_i1.mrna1.154"; +Chr5 tair10 transcript 26611810 26612012 100 - . gene_id "c71_g1_i1.path1.167";transcript_id "c71_g1_i1.mrna1.167";gene_name "c71_g1_i1"; +Chr5 tair10 exon 26611810 26612012 . - . gene_id "c71_g1_i1.path1.167";transcript_id "c71_g1_i1.mrna1.167"; +Chr5 tair10 transcript 26612157 26612362 99 - . gene_id "c114_g1_i1.path1.89";transcript_id "c114_g1_i1.mrna1.89";gene_name "c114_g1_i1"; +Chr5 tair10 exon 26612157 26612362 . - . gene_id "c114_g1_i1.path1.89";transcript_id "c114_g1_i1.mrna1.89"; +Chr5 tair10 transcript 26612358 26613923 98 - . gene_id "c137_g1_i1.path1.77";transcript_id "c137_g1_i1.mrna1.77";gene_name "c137_g1_i1"; +Chr5 tair10 exon 26612358 26612727 . - . gene_id "c137_g1_i1.path1.77";transcript_id "c137_g1_i1.mrna1.77"; +Chr5 tair10 exon 26612846 26613194 . - . gene_id "c137_g1_i1.path1.77";transcript_id "c137_g1_i1.mrna1.77"; +Chr5 tair10 exon 26613900 26613923 . - . gene_id "c137_g1_i1.path1.77";transcript_id "c137_g1_i1.mrna1.77"; +Chr5 tair10 transcript 26612911 26614294 100 - . gene_id "c37_g1_i2.path1.66";transcript_id "c37_g1_i2.mrna1.66";gene_name "c37_g1_i2"; +Chr5 tair10 exon 26612911 26612932 . - . gene_id "c37_g1_i2.path1.66";transcript_id "c37_g1_i2.mrna1.66"; +Chr5 tair10 exon 26613900 26614294 . - . gene_id "c37_g1_i2.path1.66";transcript_id "c37_g1_i2.mrna1.66"; +Chr5 tair10 transcript 26613846 26614294 96 + . gene_id "c37_g1_i1.path1.234";transcript_id "c37_g1_i1.mrna1.234";gene_name "c37_g1_i1"; +Chr5 tair10 exon 26613846 26614294 . + . gene_id "c37_g1_i1.path1.234";transcript_id "c37_g1_i1.mrna1.234"; +Chr5 tair10 transcript 26614714 26614982 98 + . gene_id "c120_g1_i1.path1.89";transcript_id "c120_g1_i1.mrna1.89";gene_name "c120_g1_i1"; +Chr5 tair10 exon 26614714 26614982 . + . gene_id "c120_g1_i1.path1.89";transcript_id "c120_g1_i1.mrna1.89";