Mercurial > repos > jjkoehorst > sapp
diff rnaseq/cutadapt/test-data/5.gff3 @ 11:a712b378e090
cutadapt added
| author | jjkoehorst <jasperkoehorst@gmail.com> |
|---|---|
| date | Sat, 21 Feb 2015 16:33:42 +0100 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/rnaseq/cutadapt/test-data/5.gff3 Sat Feb 21 16:33:42 2015 +0100 @@ -0,0 +1,150 @@ +##gff-version 3 +##date Tue Jun 26 10:48:17 2007 +##sequence-region ctgA 1 50000 +##source gbrowse GFFToGalaxyDumper plugin +##NOTE: All features dumped. +ctgA example my_feature 22132 24633 . + . ID=My_feature:f15 +ctgA example my_feature 46990 48410 . - . ID=My_feature:f11 +ctgA example my_feature 44705 47713 . - . ID=My_feature:f01 +ctgA example my_feature 36649 40440 . - . ID=My_feature:f03 +ctgA example my_feature 23072 23185 . + . ID=My_feature:f14 +ctgA example my_feature 37242 38653 . + . ID=My_feature:f04 +ctgA example motif 37497 40559 . - . ID=Motif:m15;Note=7-transmembrane +ctgA example my_feature 36034 38167 . + . ID=My_feature:f09 +ctgA example motif 28332 30033 . - . ID=Motif:m02;Note=HOX +ctgA example my_feature 4715 5968 . - . ID=My_feature:f05 +ctgA example motif 48253 48366 . + . ID=Motif:m01;Note=WD40 +ctgA example BAC 1000 20000 . . . ID=BAC:b101.2;Note=Fingerprinted+BAC+with+end+reads +ctgA example right_end_read 19500 20000 . - . Parent=BAC:b101.2 +ctgA example left_end_read 1000 1500 . + . Parent=BAC:b101.2 +ctgA example motif 13801 14007 . - . ID=Motif:m05;Note=helix+loop+helix +ctgA example coding 1050 9000 . + . ID=mRNA:EDEN.1;Gene=EDEN +ctgA example CDS 1201 1500 . + 0 Parent=mRNA:EDEN.1 +ctgA example CDS 3000 3902 . + 0 Parent=mRNA:EDEN.1 +ctgA example CDS 5000 5500 . + 0 Parent=mRNA:EDEN.1 +ctgA example CDS 7000 7608 . + 0 Parent=mRNA:EDEN.1 +ctgA example processed_transcript 1050 9000 . + . ID=mRNA:EDEN.1 +ctgA example 5'-UTR 1050 1200 . + . Parent=mRNA:EDEN.1 +ctgA example 3'-UTR 7609 9000 . + . Parent=mRNA:EDEN.1 +ctgA est match 5410 7503 . - . ID=EST:agt830.3;Target=agt830.3+1+595 +ctgA est HSP 7000 7503 . - . Parent=EST:agt830.3;Target=agt830.3+1+504 +ctgA est HSP 5410 5500 . - . Parent=EST:agt830.3;Target=agt830.3+505+595 +ctgA example motif 46012 48851 . + . ID=Motif:m09;Note=kinase +ctgA example match 6885 8999 . - . ID=Match:seg03 +ctgA example HSP 8306 8999 . - . Parent=Match:seg03 +ctgA example HSP 8055 8080 . - . Parent=Match:seg03 +ctgA example HSP 7410 7737 . - . Parent=Match:seg03 +ctgA example HSP 6885 7241 . - . Parent=Match:seg03 +ctgA example my_feature 13280 16394 . + . ID=My_feature:f08 +ctgA example match 29771 32937 . + . ID=Match:seg10 +ctgA example HSP 29771 29942 . + . Parent=Match:seg10 +ctgA example HSP 30042 30340 . + . Parent=Match:seg10 +ctgA example HSP 30810 31307 . + . Parent=Match:seg10 +ctgA example HSP 31761 31984 . + . Parent=Match:seg10 +ctgA example HSP 32374 32937 . + . Parent=Match:seg10 +ctgA example match 36616 37227 . - . ID=Match:seg09 +ctgA example HSP 37208 37227 . - . Parent=Match:seg09 +ctgA example HSP 36616 37057 . - . Parent=Match:seg09 +ctgA example motif 11911 15561 . + . ID=Motif:m11;Note=kinase +ctgA est match 1050 3202 . + . ID=EST:agt830.5;Target=agt830.5+1+654 +ctgA est HSP 1050 1500 . + . Parent=EST:agt830.5;Target=agt830.5+1+451 +ctgA est HSP 3000 3202 . + . Parent=EST:agt830.5;Target=agt830.5+452+654 +ctgA example motif 15396 16159 . + . ID=Motif:m03;Note=zinc+finger +ctgA est match 1150 7200 . + . ID=EST:agt767.5;Target=agt767.5+1+1153 +ctgA est HSP 1150 1500 . + . Parent=EST:agt767.5;Target=agt767.5+1+351 +ctgA est HSP 5000 5500 . + . Parent=EST:agt767.5;Target=agt767.5+352+852 +ctgA est HSP 7000 7200 . + . Parent=EST:agt767.5;Target=agt767.5+853+1153 +ctgA est match 1050 7300 . + . ID=EST:agt221.5;Target=agt221.5+1+1253 +ctgA est HSP 1050 1500 . + . Parent=EST:agt221.5;Target=agt221.5+1+451 +ctgA est HSP 5000 5500 . + . Parent=EST:agt221.5;Target=agt221.5+452+952 +ctgA est HSP 7000 7300 . + . Parent=EST:agt221.5;Target=agt221.5+953+1253 +ctgA example my_feature 19157 22915 . - . ID=My_feature:f13 +ctgA est match 8000 9000 . - . ID=EST:agt767.3;Target=agt767.3+1+1001 +ctgA est HSP 8000 9000 . - . Parent=EST:agt767.3;Target=agt767.3+1+1001 +ctgA example motif 28342 28447 . - . ID=Motif:m10;Note=DEAD+box +ctgA example motif 17667 17690 . + . ID=Motif:m13;Note=DEAD+box +ctgA example trace 44401 45925 . + . ID=name:trace;trace=volvox_trace.scf +ctgA example match 26122 34466 . + . ID=Match:seg02 +ctgA example HSP 26122 26126 . + . Parent=Match:seg02 +ctgA example HSP 26497 26869 . + . Parent=Match:seg02 +ctgA example HSP 27201 27325 . + . Parent=Match:seg02 +ctgA example HSP 27372 27433 . + . Parent=Match:seg02 +ctgA example HSP 27565 27565 . + . Parent=Match:seg02 +ctgA example HSP 27813 28091 . + . Parent=Match:seg02 +ctgA example HSP 28093 28201 . + . Parent=Match:seg02 +ctgA example HSP 28329 28377 . + . Parent=Match:seg02 +ctgA example HSP 28829 29194 . + . Parent=Match:seg02 +ctgA example HSP 29517 29702 . + . Parent=Match:seg02 +ctgA example HSP 29713 30061 . + . Parent=Match:seg02 +ctgA example HSP 30329 30774 . + . Parent=Match:seg02 +ctgA example HSP 30808 31306 . + . Parent=Match:seg02 +ctgA example HSP 31516 31729 . + . Parent=Match:seg02 +ctgA example HSP 31753 32154 . + . Parent=Match:seg02 +ctgA example HSP 32595 32696 . + . Parent=Match:seg02 +ctgA example HSP 32892 32901 . + . Parent=Match:seg02 +ctgA example HSP 33127 33388 . + . Parent=Match:seg02 +ctgA example HSP 33439 33443 . + . Parent=Match:seg02 +ctgA example HSP 33759 34209 . + . Parent=Match:seg02 +ctgA example HSP 34401 34466 . + . Parent=Match:seg02 +ctgA example contig 1 50000 . . . ID=Contig:ctgA +ctgA example match 41137 47829 . - . ID=Match:seg14 +ctgA example HSP 47449 47829 . - . Parent=Match:seg14 +ctgA example HSP 46816 46992 . - . Parent=Match:seg14 +ctgA example HSP 46092 46318 . - . Parent=Match:seg14 +ctgA example HSP 45790 46022 . - . Parent=Match:seg14 +ctgA example HSP 45231 45488 . - . Parent=Match:seg14 +ctgA example HSP 44763 45030 . - . Parent=Match:seg14 +ctgA example HSP 44065 44556 . - . Parent=Match:seg14 +ctgA example HSP 43395 43811 . - . Parent=Match:seg14 +ctgA example HSP 42890 43270 . - . Parent=Match:seg14 +ctgA example HSP 42057 42474 . - . Parent=Match:seg14 +ctgA example HSP 41754 41948 . - . Parent=Match:seg14 +ctgA example HSP 41137 41318 . - . Parent=Match:seg14 +ctgA example match 12531 15870 . + . ID=Match:seg12 +ctgA example HSP 12531 12895 . + . Parent=Match:seg12 +ctgA example HSP 13122 13449 . + . Parent=Match:seg12 +ctgA example HSP 13452 13745 . + . Parent=Match:seg12 +ctgA example HSP 13908 13965 . + . Parent=Match:seg12 +ctgA example HSP 13998 14488 . + . Parent=Match:seg12 +ctgA example HSP 14564 14899 . + . Parent=Match:seg12 +ctgA example HSP 15185 15276 . + . Parent=Match:seg12 +ctgA example HSP 15639 15736 . + . Parent=Match:seg12 +ctgA example HSP 15745 15870 . + . Parent=Match:seg12 +ctgA est match 7500 8000 . - . ID=EST:agt221.3;Target=agt221.3+1+501 +ctgA est HSP 7500 8000 . - . Parent=EST:agt221.3;Target=agt221.3+1+501 +ctgA example coding 1300 9000 . + . ID=mRNA:EDEN.3;Gene=EDEN +ctgA example CDS 3301 3902 . + 0 Parent=mRNA:EDEN.3 +ctgA example CDS 5000 5500 . + 1 Parent=mRNA:EDEN.3 +ctgA example CDS 7000 7600 . + 1 Parent=mRNA:EDEN.3 +ctgA example processed_transcript 1300 9000 . + . ID=mRNA:EDEN.3 +ctgA example 5'-UTR 1300 1500 . + . Parent=mRNA:EDEN.3 +ctgA example 5'-UTR 3000 3300 . + . Parent=mRNA:EDEN.3 +ctgA example 3'-UTR 7601 9000 . + . Parent=mRNA:EDEN.3 +ctgA example match 26503 35904 . - . ID=Match:seg05 +ctgA example HSP 35642 35904 . - . Parent=Match:seg05 +ctgA example HSP 35333 35507 . - . Parent=Match:seg05 +ctgA example HSP 34605 34983 . - . Parent=Match:seg05 +ctgA example HSP 34244 34313 . - . Parent=Match:seg05 +ctgA example HSP 33438 33868 . - . Parent=Match:seg05 +ctgA example HSP 33053 33325 . - . Parent=Match:seg05 +ctgA example HSP 32208 32680 . - . Parent=Match:seg05 +ctgA example HSP 32010 32057 . - . Parent=Match:seg05 +ctgA example HSP 31421 31817 . - . Parent=Match:seg05 +ctgA example HSP 31232 31236 . - . Parent=Match:seg05 +ctgA example HSP 30465 30798 . - . Parent=Match:seg05 +ctgA example HSP 30108 30216 . - . Parent=Match:seg05 +ctgA example HSP 29513 29647 . - . Parent=Match:seg05 +ctgA example HSP 28777 29058 . - . Parent=Match:seg05 +ctgA example HSP 28225 28316 . - . Parent=Match:seg05 +ctgA example HSP 27887 28076 . - . Parent=Match:seg05 +ctgA example HSP 27448 27860 . - . Parent=Match:seg05 +ctgA example HSP 27172 27185 . - . Parent=Match:seg05 +ctgA example HSP 26503 26799 . - . Parent=Match:seg05 +ctgA example match 49406 50000 . + . ID=Match:seg13 +ctgA example HSP 49406 49476 . + . Parent=Match:seg13 +ctgA example HSP 49762 50000 . + . Parent=Match:seg13 +ctgA example gene 1050 9000 . + . ID=Gene:EDEN;Note=protein+kinase +ctgA example motif 33325 35791 . + . ID=Motif:m04;Note=Ig-like +ctgA example match 31785 32359 . + . ID=Match:seg01 +ctgA example HSP 31785 31939 . + . Parent=Match:seg01 +ctgA example HSP 32329 32359 . + . Parent=Match:seg01