Mercurial > repos > iuc > aegean_locuspocus
diff test-data/gaeval_output_test3.txt @ 0:c4ac24510b55 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/aegean commit e6c01517075cab35e620fe1bbdb5fd68e4d1359f"
| author | iuc |
|---|---|
| date | Sun, 03 Jan 2021 14:58:58 +0000 |
| parents | |
| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/gaeval_output_test3.txt Sun Jan 03 14:58:58 2021 +0000 @@ -0,0 +1,143 @@ +##gff-version 3 +##sequence-region Chr1 1 30427671 +Chr1 TAIR10 chromosome 1 30427671 . . . ID=Chr1;Name=Chr1 +### +Chr1 TAIR10 gene 3631 5899 . + . ID=AT1G01010;Note=protein_coding_gene;Name=AT1G01010 +Chr1 TAIR10 mRNA 3631 5899 . + . ID=AT1G01010.1;Parent=AT1G01010;Name=AT1G01010.1;index=1;gaeval_coverage=0.000;gaeval_integrity=0.093 +Chr1 TAIR10 five_prime_UTR 3631 3759 . + . Parent=AT1G01010.1 +Chr1 TAIR10 exon 3631 3913 . + . Parent=AT1G01010.1 +Chr1 AEGeAn::GAEVAL start_codon 3760 3762 . + . Parent=AT1G01010.1 +Chr1 AEGeAn::GAEVAL intron 3914 3995 . + . Parent=AT1G01010.1 +Chr1 TAIR10 exon 3996 4276 . + . Parent=AT1G01010.1 +Chr1 AEGeAn::GAEVAL intron 4277 4485 . + . Parent=AT1G01010.1 +Chr1 TAIR10 exon 4486 4605 . + . Parent=AT1G01010.1 +Chr1 AEGeAn::GAEVAL intron 4606 4705 . + . Parent=AT1G01010.1 +Chr1 TAIR10 exon 4706 5095 . + . Parent=AT1G01010.1 +Chr1 AEGeAn::GAEVAL intron 5096 5173 . + . Parent=AT1G01010.1 +Chr1 TAIR10 exon 5174 5326 . + . Parent=AT1G01010.1 +Chr1 AEGeAn::GAEVAL intron 5327 5438 . + . Parent=AT1G01010.1 +Chr1 TAIR10 exon 5439 5899 . + . Parent=AT1G01010.1 +Chr1 AEGeAn::GAEVAL stop_codon 5628 5630 . + . Parent=AT1G01010.1 +Chr1 TAIR10 three_prime_UTR 5631 5899 . + . Parent=AT1G01010.1 +Chr1 TAIR10 protein 3760 5630 . + . ID=AT1G01010.1-Protein;Name=AT1G01010.1;Derives_from=AT1G01010.1 +Chr1 TAIR10 CDS 3760 3913 . + 0 ID=CDS0;Parent=AT1G01010.1,AT1G01010.1-Protein +Chr1 TAIR10 CDS 3996 4276 . + 2 ID=CDS0;Parent=AT1G01010.1,AT1G01010.1-Protein +Chr1 TAIR10 CDS 4486 4605 . + 0 ID=CDS0;Parent=AT1G01010.1,AT1G01010.1-Protein +Chr1 TAIR10 CDS 4706 5095 . + 0 ID=CDS0;Parent=AT1G01010.1,AT1G01010.1-Protein +Chr1 TAIR10 CDS 5174 5326 . + 0 ID=CDS0;Parent=AT1G01010.1,AT1G01010.1-Protein +Chr1 TAIR10 CDS 5439 5630 . + 0 ID=CDS0;Parent=AT1G01010.1,AT1G01010.1-Protein +### +Chr1 TAIR10 gene 5928 8737 . - . ID=AT1G01020;Note=protein_coding_gene;Name=AT1G01020 +Chr1 TAIR10 mRNA 5928 8737 . - . ID=AT1G01020.1;Parent=AT1G01020;Name=AT1G01020.1;index=1;gaeval_coverage=0.000;gaeval_integrity=0.074 +Chr1 TAIR10 three_prime_UTR 5928 6263 . - . Parent=AT1G01020.1 +Chr1 TAIR10 exon 5928 6263 . - . Parent=AT1G01020.1 +Chr1 AEGeAn::GAEVAL intron 6264 6436 . - . Parent=AT1G01020.1 +Chr1 TAIR10 three_prime_UTR 6437 6914 . - . Parent=AT1G01020.1 +Chr1 TAIR10 exon 6437 7069 . - . Parent=AT1G01020.1 +Chr1 AEGeAn::GAEVAL stop_codon 6915 6917 . - . Parent=AT1G01020.1 +Chr1 TAIR10 exon 7157 7232 . - . Parent=AT1G01020.1 +Chr1 AEGeAn::GAEVAL intron 7233 7383 . - . Parent=AT1G01020.1 +Chr1 TAIR10 exon 7384 7450 . - . Parent=AT1G01020.1 +Chr1 TAIR10 exon 7564 7649 . - . Parent=AT1G01020.1 +Chr1 TAIR10 exon 7762 7835 . - . Parent=AT1G01020.1 +Chr1 TAIR10 exon 7942 7987 . - . Parent=AT1G01020.1 +Chr1 TAIR10 exon 8236 8325 . - . Parent=AT1G01020.1 +Chr1 TAIR10 exon 8417 8464 . - . Parent=AT1G01020.1 +Chr1 TAIR10 exon 8571 8737 . - . Parent=AT1G01020.1 +Chr1 AEGeAn::GAEVAL start_codon 8664 8666 . - . Parent=AT1G01020.1 +Chr1 TAIR10 five_prime_UTR 8667 8737 . - . Parent=AT1G01020.1 +Chr1 TAIR10 mRNA 6790 8737 . - . ID=AT1G01020.2;Parent=AT1G01020;Name=AT1G01020.2;index=1;gaeval_coverage=0.000;gaeval_integrity=0.074 +Chr1 TAIR10 three_prime_UTR 6790 7069 . - . Parent=AT1G01020.2 +Chr1 TAIR10 exon 6790 7069 . - . Parent=AT1G01020.2 +Chr1 AEGeAn::GAEVAL intron 7070 7156 . - . Parent=AT1G01020.1,AT1G01020.2 +Chr1 TAIR10 three_prime_UTR 7157 7314 . - . Parent=AT1G01020.2 +Chr1 TAIR10 exon 7157 7450 . - . Parent=AT1G01020.2 +Chr1 AEGeAn::GAEVAL stop_codon 7315 7317 . - . Parent=AT1G01020.2 +Chr1 AEGeAn::GAEVAL intron 7451 7563 . - . Parent=AT1G01020.1,AT1G01020.2 +Chr1 TAIR10 exon 7564 7649 . - . Parent=AT1G01020.2 +Chr1 AEGeAn::GAEVAL intron 7650 7761 . - . Parent=AT1G01020.1,AT1G01020.2 +Chr1 TAIR10 exon 7762 7835 . - . Parent=AT1G01020.2 +Chr1 AEGeAn::GAEVAL intron 7836 7941 . - . Parent=AT1G01020.1,AT1G01020.2 +Chr1 TAIR10 exon 7942 7987 . - . Parent=AT1G01020.2 +Chr1 AEGeAn::GAEVAL intron 7988 8235 . - . Parent=AT1G01020.1,AT1G01020.2 +Chr1 TAIR10 exon 8236 8325 . - . Parent=AT1G01020.2 +Chr1 AEGeAn::GAEVAL intron 8326 8416 . - . Parent=AT1G01020.1,AT1G01020.2 +Chr1 TAIR10 exon 8417 8464 . - . Parent=AT1G01020.2 +Chr1 AEGeAn::GAEVAL intron 8465 8570 . - . Parent=AT1G01020.1,AT1G01020.2 +Chr1 TAIR10 exon 8571 8737 . - . Parent=AT1G01020.2 +Chr1 AEGeAn::GAEVAL start_codon 8664 8666 . - . Parent=AT1G01020.2 +Chr1 TAIR10 five_prime_UTR 8667 8737 . - . Parent=AT1G01020.2 +Chr1 TAIR10 protein 6915 8666 . - . ID=AT1G01020.1-Protein;Name=AT1G01020.1;Derives_from=AT1G01020.1 +Chr1 TAIR10 CDS 6915 7069 . - 2 ID=CDS1;Parent=AT1G01020.1,AT1G01020.1-Protein +Chr1 TAIR10 CDS 7157 7232 . - 0 ID=CDS1;Parent=AT1G01020.1,AT1G01020.1-Protein +Chr1 TAIR10 CDS 7384 7450 . - 1 ID=CDS1;Parent=AT1G01020.1,AT1G01020.1-Protein +Chr1 TAIR10 CDS 7564 7649 . - 0 ID=CDS1;Parent=AT1G01020.1,AT1G01020.1-Protein +Chr1 TAIR10 CDS 7762 7835 . - 2 ID=CDS1;Parent=AT1G01020.1,AT1G01020.1-Protein +Chr1 TAIR10 CDS 7942 7987 . - 0 ID=CDS1;Parent=AT1G01020.1,AT1G01020.1-Protein +Chr1 TAIR10 CDS 8236 8325 . - 0 ID=CDS1;Parent=AT1G01020.1,AT1G01020.1-Protein +Chr1 TAIR10 CDS 8417 8464 . - 0 ID=CDS1;Parent=AT1G01020.1,AT1G01020.1-Protein +Chr1 TAIR10 CDS 8571 8666 . - 0 ID=CDS1;Parent=AT1G01020.1,AT1G01020.1-Protein +Chr1 TAIR10 protein 7315 8666 . - . ID=AT1G01020.2-Protein;Name=AT1G01020.2;Derives_from=AT1G01020.2 +Chr1 TAIR10 CDS 7315 7450 . - 1 ID=CDS2;Parent=AT1G01020.2,AT1G01020.2-Protein +Chr1 TAIR10 CDS 7564 7649 . - 0 ID=CDS2;Parent=AT1G01020.2,AT1G01020.2-Protein +Chr1 TAIR10 CDS 7762 7835 . - 2 ID=CDS2;Parent=AT1G01020.2,AT1G01020.2-Protein +Chr1 TAIR10 CDS 7942 7987 . - 0 ID=CDS2;Parent=AT1G01020.2,AT1G01020.2-Protein +Chr1 TAIR10 CDS 8236 8325 . - 0 ID=CDS2;Parent=AT1G01020.2,AT1G01020.2-Protein +Chr1 TAIR10 CDS 8417 8464 . - 0 ID=CDS2;Parent=AT1G01020.2,AT1G01020.2-Protein +Chr1 TAIR10 CDS 8571 8666 . - 0 ID=CDS2;Parent=AT1G01020.2,AT1G01020.2-Protein +### +Chr1 TAIR10 gene 11649 13714 . - . ID=AT1G01030;Note=protein_coding_gene;Name=AT1G01030 +Chr1 TAIR10 mRNA 11649 13714 . - . ID=AT1G01030.1;Parent=AT1G01030;Name=AT1G01030.1;index=1;gaeval_coverage=0.000;gaeval_integrity=0.100 +Chr1 TAIR10 three_prime_UTR 11649 11863 . - . Parent=AT1G01030.1 +Chr1 TAIR10 exon 11649 13173 . - . Parent=AT1G01030.1 +Chr1 AEGeAn::GAEVAL stop_codon 11864 11866 . - . Parent=AT1G01030.1 +Chr1 AEGeAn::GAEVAL start_codon 12938 12940 . - . Parent=AT1G01030.1 +Chr1 TAIR10 five_prime_UTR 12941 13173 . - . Parent=AT1G01030.1 +Chr1 AEGeAn::GAEVAL intron 13174 13334 . - . Parent=AT1G01030.1 +Chr1 TAIR10 five_prime_UTR 13335 13714 . - . Parent=AT1G01030.1 +Chr1 TAIR10 exon 13335 13714 . - . Parent=AT1G01030.1 +Chr1 TAIR10 protein 11864 12940 . - . ID=AT1G01030.1-Protein;Name=AT1G01030.1;Derives_from=AT1G01030.1 +Chr1 TAIR10 CDS 11864 12940 . - 0 Parent=AT1G01030.1,AT1G01030.1-Protein +### +Chr1 TAIR10 gene 23146 31227 . + . ID=AT1G01040;Note=protein_coding_gene;Name=AT1G01040 +Chr1 TAIR10 mRNA 23146 31227 . + . ID=AT1G01040.1;Parent=AT1G01040;Name=AT1G01040.1;index=1;gaeval_coverage=0.000;gaeval_integrity=0.050 +Chr1 TAIR10 five_prime_UTR 23146 23518 . + . Parent=AT1G01040.1 +Chr1 TAIR10 exon 23146 24451 . + . Parent=AT1G01040.1 +Chr1 AEGeAn::GAEVAL start_codon 23519 23521 . + . Parent=AT1G01040.1 +Chr1 AEGeAn::GAEVAL intron 24452 24541 . + . Parent=AT1G01040.1 +Chr1 TAIR10 exon 24542 24655 . + . Parent=AT1G01040.1 +Chr1 AEGeAn::GAEVAL intron 24656 24751 . + . Parent=AT1G01040.1 +Chr1 TAIR10 exon 24752 24962 . + . Parent=AT1G01040.1 +Chr1 AEGeAn::GAEVAL intron 24963 25040 . + . Parent=AT1G01040.1 +Chr1 TAIR10 exon 25041 25435 . + . Parent=AT1G01040.1 +Chr1 AEGeAn::GAEVAL intron 25436 25523 . + . Parent=AT1G01040.1 +Chr1 TAIR10 exon 25524 25743 . + . Parent=AT1G01040.1 +Chr1 AEGeAn::GAEVAL intron 25744 25824 . + . Parent=AT1G01040.1 +Chr1 TAIR10 exon 25825 25997 . + . Parent=AT1G01040.1 +Chr1 AEGeAn::GAEVAL intron 25998 26080 . + . Parent=AT1G01040.1 +Chr1 TAIR10 exon 26081 26203 . + . Parent=AT1G01040.1 +Chr1 AEGeAn::GAEVAL intron 26204 26291 . + . Parent=AT1G01040.1 +Chr1 TAIR10 exon 26292 26452 . + . Parent=AT1G01040.1 +Chr1 AEGeAn::GAEVAL intron 26453 26542 . + . Parent=AT1G01040.1 +Chr1 TAIR10 exon 26543 26776 . + . Parent=AT1G01040.1 +Chr1 AEGeAn::GAEVAL intron 26777 26861 . + . Parent=AT1G01040.1 +Chr1 TAIR10 exon 26862 27012 . + . Parent=AT1G01040.1 +Chr1 AEGeAn::GAEVAL intron 27013 27098 . + . Parent=AT1G01040.1 +Chr1 TAIR10 exon 27099 27281 . + . Parent=AT1G01040.1 +Chr1 AEGeAn::GAEVAL intron 27282 27371 . + . Parent=AT1G01040.1 +Chr1 TAIR10 exon 27372 27533 . + . Parent=AT1G01040.1 +Chr1 AEGeAn::GAEVAL stop_codon 27531 27533 . + . Parent=AT1G01040.1 +Chr1 TAIR10 protein 23519 31079 . + . ID=AT1G01040.1-Protein;Name=AT1G01040.1;Derives_from=AT1G01040.1 +Chr1 TAIR10 CDS 23519 24451 . + 0 ID=CDS3;Parent=AT1G01040.1,AT1G01040.1-Protein +Chr1 TAIR10 CDS 24542 24655 . + 0 ID=CDS3;Parent=AT1G01040.1,AT1G01040.1-Protein +Chr1 TAIR10 CDS 24752 24962 . + 0 ID=CDS3;Parent=AT1G01040.1,AT1G01040.1-Protein +Chr1 TAIR10 CDS 25041 25435 . + 2 ID=CDS3;Parent=AT1G01040.1,AT1G01040.1-Protein +Chr1 TAIR10 CDS 25524 25743 . + 0 ID=CDS3;Parent=AT1G01040.1,AT1G01040.1-Protein +Chr1 TAIR10 CDS 25825 25997 . + 2 ID=CDS3;Parent=AT1G01040.1,AT1G01040.1-Protein +Chr1 TAIR10 CDS 26081 26203 . + 0 ID=CDS3;Parent=AT1G01040.1,AT1G01040.1-Protein +Chr1 TAIR10 CDS 26292 26452 . + 0 ID=CDS3;Parent=AT1G01040.1,AT1G01040.1-Protein +Chr1 TAIR10 CDS 26543 26776 . + 1 ID=CDS3;Parent=AT1G01040.1,AT1G01040.1-Protein +Chr1 TAIR10 CDS 26862 27012 . + 1 ID=CDS3;Parent=AT1G01040.1,AT1G01040.1-Protein +Chr1 TAIR10 CDS 27099 27281 . + 0 ID=CDS3;Parent=AT1G01040.1,AT1G01040.1-Protein +Chr1 TAIR10 CDS 27372 27533 . + 0 ID=CDS3;Parent=AT1G01040.1,AT1G01040.1-Protein +###