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comparison test-data/map_qual/snps.gff @ 1:82f2b6f20fa2 draft

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planemo upload commit c295a06009ccafd0c1dc8aba5dd87239795d2b61
author iuc
date Sat, 26 Jan 2019 14:36:48 -0500
parents c9a8ef2aa380
children
comparison
equal deleted inserted replaced
0:c9a8ef2aa380 1:82f2b6f20fa2
1 ##gff-version 3 1 ##gff-version 3
2 Wildtype snippy:3.2-dev variation 24388 24388 . . 0 note=snp A=>G G:22 A:0 CDS + 1/702 1/233 initiator_codon_variant c.1A>G p.Met1? WILD_00022 walR Transcriptional regulatory protein WalR 2 Wildtype snippy:3.2-dev variation 24388 24388 . . 0 note=snp A=>G G:22 A:0 CDS + 1/702 1/233 initiator_codon_variant c.1A>G p.Met1? WILD_00022 walR Transcriptional regulatory protein WalR
3 Wildtype snippy:3.2-dev variation 29479 29479 . . 0 note=snp T=>G G:21 T:0 CDS + 39/792 13/263 synonymous_variant c.39T>G p.Gly13Gly WILD_00026 yycJ Putative metallo-hydrolase YycJ 3 Wildtype snippy:3.2-dev variation 29479 29479 . . 0 note=snp T=>G G:21 T:0 CDS + 39/792 13/263 synonymous_variant c.39T>G p.Gly13Gly WILD_00026 yycJ Putative metallo-hydrolase YycJ
4 Wildtype snippy:3.2-dev variation 47299 47299 . . 0 note=snp T=>A A:24 T:0 CDS + 54/1758 18/585 stop_gained c.54T>A p.Cys18* WILD_00043 mecR1 Methicillin resistance mecR1 protein 4 Wildtype snippy:3.2-dev variation 47299 47299 . . 0 note=snp T=>A A:25 T:0 CDS + 54/1758 18/585 stop_gained c.54T>A p.Cys18* WILD_00043 mecR1 Methicillin resistance mecR1 protein
5 Wildtype snippy:3.2-dev variation 102969 102969 . . 0 note=snp G=>C C:16 G:0 CDS - 87/1281 29/426 synonymous_variant c.87C>G p.Gly29Gly WILD_00093 spa Immunoglobulin G-binding protein A 5 Wildtype snippy:3.2-dev variation 102969 102969 . . 0 note=snp G=>C C:16 G:0 CDS - 87/1281 29/426 synonymous_variant c.87C>G p.Gly29Gly WILD_00093 spa Immunoglobulin G-binding protein A
6 Wildtype snippy:3.2-dev variation 103048 103048 . . 0 note=snp T=>A A:20 T:0 CDS - 8/1281 3/426 missense_variant c.8A>T p.Lys3Met WILD_00093 spa Immunoglobulin G-binding protein A 6 Wildtype snippy:3.2-dev variation 103048 103048 . . 0 note=snp T=>A A:21 T:0 CDS - 8/1281 3/426 missense_variant c.8A>T p.Lys3Met WILD_00093 spa Immunoglobulin G-binding protein A
7 Wildtype snippy:3.2-dev variation 103379 103379 . . 0 note=del GAA=>GA GA:11 GAA:0 7 Wildtype snippy:3.2-dev variation 103379 103379 . . 0 note=del GAAAATAG=>GAAATAG GAAATAG:11 GAAAATAG:0
8 Wildtype snippy:3.2-dev variation 106602 106602 . . 0 note=snp T=>G G:21 T:0 CDS - 993/993 331/330 stop_lost&splice_region_variant c.993A>C p.Ter331Tyrext*? WILD_00097 yfiY putative siderophore-binding lipoprotein YfiY 8 Wildtype snippy:3.2-dev variation 106602 106602 . . 0 note=snp T=>G G:22 T:0 CDS - 993/993 331/330 stop_lost&splice_region_variant c.993A>C p.Ter331Tyrext*? WILD_00097 yfiY putative siderophore-binding lipoprotein YfiY
9 Wildtype snippy:3.2-dev variation 109833 109833 . . 0 note=snp T=>A A:16 T:0 CDS + 1/1755 1/584 initiator_codon_variant c.1T>A p.Leu1? WILD_00100 iucC_1 Aerobactin synthase 9 Wildtype snippy:3.2-dev variation 106722 106722 . . 0 note=ins GTTTTTAAC=>GTTTTTTAAC GTTTTTTAAC:11 GTTTTTAAC:0 CDS - 867/993 289/330 frameshift_variant c.867_868insA p.Asn291fs WILD_00097 yfiY putative siderophore-binding lipoprotein YfiY
10 Wildtype snippy:3.2-dev variation 114540 114540 . . 0 note=del ATT=>AT AT:25 ATT:0 CDS + 1717/1737 573/578 frameshift_variant c.1717delT p.Cys573fs WILD_00102 iucA N(2)-citryl-N(6)-acetyl-N(6)-hydroxylysine synthase 10 Wildtype snippy:3.2-dev variation 109833 109833 . . 0 note=snp T=>A A:17 T:0 CDS + 1/1755 1/584 initiator_codon_variant c.1T>A p.Leu1? WILD_00100 iucC_1 Aerobactin synthase
11 Wildtype snippy:3.2-dev variation 129881 129881 . . 0 note=mnp GT=>AA AA:18 GT:0 CDS + 55/708 19/235 missense_variant c.55_56delGTinsAA p.Val19Asn WILD_00117 deoD Purine nucleoside phosphorylase DeoD-type 11 Wildtype snippy:3.2-dev variation 114540 114540 . . 0 note=del ATTGTGA=>ATGTGA ATGTGA:26 ATTGTGA:0 CDS + 1717/1737 573/578 frameshift_variant c.1717delT p.Cys573fs WILD_00102 iucA N(2)-citryl-N(6)-acetyl-N(6)-hydroxylysine synthase
12 Wildtype snippy:3.2-dev variation 129881 129881 . . 0 note=mnp GT=>AA AA:19 GT:0 CDS + 55/708 19/235 missense_variant c.55_56delGTinsAA p.Val19Asn WILD_00117 deoD Purine nucleoside phosphorylase DeoD-type
12 Wildtype snippy:3.2-dev variation 138877 138877 . . 0 note=snp G=>C C:14 G:0 CDS + 1119/1545 373/514 missense_variant c.1119G>C p.Trp373Cys WILD_00125 hypothetical protein 13 Wildtype snippy:3.2-dev variation 138877 138877 . . 0 note=snp G=>C C:14 G:0 CDS + 1119/1545 373/514 missense_variant c.1119G>C p.Trp373Cys WILD_00125 hypothetical protein
13 Wildtype snippy:3.2-dev variation 138920 138920 . . 0 note=snp A=>G G:10 A:0 CDS + 1162/1545 388/514 missense_variant c.1162A>G p.Lys388Glu WILD_00125 hypothetical protein 14 Wildtype snippy:3.2-dev variation 138920 138920 . . 0 note=snp A=>G G:10 A:0 CDS + 1162/1545 388/514 missense_variant c.1162A>G p.Lys388Glu WILD_00125 hypothetical protein
15 Wildtype snippy:3.2-dev variation 138954 138954 . . 0 note=snp A=>G G:10 A:0 CDS + 1196/1545 399/514 missense_variant c.1196A>G p.Asp399Gly WILD_00125 hypothetical protein
14 Wildtype snippy:3.2-dev variation 160547 160547 . . 0 note=del GTC=>GC GC:18 GTC:0 16 Wildtype snippy:3.2-dev variation 160547 160547 . . 0 note=del GTC=>GC GC:18 GTC:0
15 Wildtype snippy:3.2-dev variation 160552 160552 . . 0 note=del CTA=>CA CA:20 CTA:0 17 Wildtype snippy:3.2-dev variation 190866 190866 . . 0 note=del GTTTTCTTTAA=>GTTTCTTTAA GTTTCTTTAA:17 GTTTTCTTTAA:0 CDS - 26/1356 9/451 frameshift_variant c.26delA p.Asn10fs WILD_00166 brnQ Branched-chain amino acid transport system 2 carrier protein
16 Wildtype snippy:3.2-dev variation 190866 190866 . . 0 note=del GTT=>GT GT:18 GTT:0 CDS - 28/1356 10/451 frameshift_variant c.28delA p.Asn10fs WILD_00166 brnQ Branched-chain amino acid transport system 2 carrier protein