Command line: [exonerate -m p2g --showtargetgff -q GPx4/GPx4_U.fa -t GPx4/SUBSEQ/KB228918.1_1_subseq.txt --exhaustive yes] Hostname: [luke] C4 Alignment: ------------ Query: GPx4 Target: KB228918.1:subseq(4487468,25098) Odobenus rosmarus divergens isolate Ivan unplaced genomic scaffold Scaffold41, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 837 Query range: 27 -> 196 Target range: 25098 -> 23947 28 : MetCysAlaSerArgAspAspTrpArgCysAlaArgSerMetHisGluPheSerAlaLys : 47 ..!||||||||||||||||||||||||||||||!:!|||||||||||||||||||||||| GlnCysAlaSerArgAspAspTrpArgCysAlaGlnSerMetHisGluPheSerAlaLys 25098 : CAGTGCGCGTCCCGAGACGACTGGCGCTGTGCTCAGTCTATGCACGAGTTCTCCGCCAAG : 25041 48 : AspIleAspGlyHisMetValAsnLeuAspLysTyr{Ar} >>>> Target Intron : 60 ||||||||||||!.!|||||||||||||||||||||{||} 83 bp AspIleAspGlyArgMetValAsnLeuAspLysTyr{Ar}++ 25040 : GACATCGATGGACGCATGGTTAACCTGGACAAGTAC{CG}gt.................. : 24998 61 : 1 >>>> {g}GlyPheValCysIleValThrAsnValAlaSerGlnUnkGlyLysThr : 76 {|}|||||||||||||||||||||||||||||||||||| ||||||||| ++{g}GlyPheValCysIleValThrAsnValAlaSerGln***GlyLysThr 24997 : .......ag{G}GGCTTCGTGTGCATCGTCACCAACGTGGCCTCGCAGTGAGGCAAAACA : 24871 77 : GluValAsnTyrThrGlnLeuValAspLeuHisAlaArgTyrAlaGluCysGlyLeuArg : 96 !!:||||||||||||||||||||||||||||||||||||||||||||| !!||||||||| AspValAsnTyrThrGlnLeuValAspLeuHisAlaArgTyrAlaGluGlyGlyLeuArg 24870 : GACGTAAACTATACTCAGCTTGTCGACCTGCACGCCCGATACGCTGAGGGTGGTTTACGG : 24811 97 : IleLeuAlaPheProCysAsnGlnPheGlyLysGln >>>> Target Intron 2 > : 109 ||||||||||||||||||||||||||||||!:!||| 102 bp IleLeuAlaPheProCysAsnGlnPheGlyArgGln++ 24810 : ATCCTGGCCTTCCCTTGCAACCAGTTCGGGAGGCAGgt...................... : 24770 110 : >>> GluProGlySerAsnGluGluIleLysGluPheAlaAlaGlyTyrAsnValLysP : 127 |||||||||||||||! !||||||||||||||||||||||||||||||||||||| ++GluProGlySerAsnAlaGluIleLysGluPheAlaAlaGlyTyrAsnValLysP 24769 : ...agGAGCCAGGGAGCAATGCGGAGATCAAAGAGTTCGCTGCTGGCTATAATGTCAAAT : 24616 128 : heAspMetPheSerLysIleCysValAsnGlyAspAspAlaHisProLeuTrpLysTrpM : 147 ||||||||!:!||||||||||||||||||||||||||||||||||||||||||||||||| heAspMetTyrSerLysIleCysValAsnGlyAspAspAlaHisProLeuTrpLysTrpM 24615 : TCGATATGTACAGCAAGATCTGTGTGAATGGGGACGATGCTCACCCGCTGTGGAAGTGGA : 24556 148 : etLysIleGlnProLysGlyLysGlyIleLeuGly{As} >>>> Target Intron : 159 |||||:!!||||||||||||!:!||||||||||||{||} 130 bp etLysValGlnProLysGlyArgGlyIleLeuGly{As}++ 24555 : TGAAAGTCCAGCCCAAGGGGAGGGGCATCCTGGGA{AA}gt................... : 24516 160 : 3 >>>> {n}AlaIleLysTrpAsnPheThrLys >>>> Target Intron 4 >> : 168 {|}|||||||||||||||||||||||| 250 bp ++{n}AlaIleLysTrpAsnPheThrLys++ 24515 : ......ag{T}GCCATCAAATGGAATTTCACCAAGgt....................... : 24361 169 : >> PheLeuIleAspLysAsnGlyCysValValLysArgTyrGlyProMetGluGluPr : 186 |||||||||||||||||||||||||||||||||||||||||||||||||||||||| ++PheLeuIleAspLysAsnGlyCysValValLysArgTyrGlyProMetGluGluPr 24360 : ..agTTCCTCATTGACAAGAACGGCTGTGTGGTGAAGCGGTATGGTCCCATGGAAGAGCC : 24059 187 : oLeu >>>> Target Intron 5 >>>> ValIleGluLysAspLeuProHisTyr : 196 |||| 79 bp ||||||||||||||||||||| !||| oLeu++ ++ValIleGluLysAspLeuProCysTyr 24058 : CCTGgt.........................agGTAATAGAGAAGGACTTGCCCTGCTAC : 23950 vulgar: 27 196 . KB228918.1:subseq(4487468,25098) 25098 23947 - 837 M 32 96 S 0 2 5 0 2 I 0 79 3 0 2 S 1 1 M 48 144 5 0 2 I 0 98 3 0 2 M 50 150 S 0 2 5 0 2 I 0 126 3 0 2 S 1 1 M 8 24 5 0 2 I 0 246 3 0 2 M 20 60 5 0 2 I 0 75 3 0 2 M 9 27 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2015-11-25 ##type DNA # # # seqname source feature start end score strand frame attributes # KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local gene 23948 25098 837 - . gene_id 1 ; sequence ; gene_orientation + KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local cds 25001 25098 . - . KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local exon 25001 25098 . - . insertions 0 ; deletions 0 KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local splice5 24999 25000 . - . intron_id 1 ; splice_site "GT" KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local intron 24918 25000 . - . intron_id 1 KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local splice3 24918 24919 . - . intron_id 0 ; splice_site "AG" KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local cds 24773 24917 . - . KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local exon 24773 24917 . - . insertions 0 ; deletions 0 KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local splice5 24771 24772 . - . intron_id 2 ; splice_site "GT" KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local intron 24671 24772 . - . intron_id 2 KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local splice3 24671 24672 . - . intron_id 1 ; splice_site "AG" KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local cds 24519 24670 . - . KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local exon 24519 24670 . - . insertions 0 ; deletions 0 KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local splice5 24517 24518 . - . intron_id 3 ; splice_site "gt" KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local intron 24389 24518 . - . intron_id 3 KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local splice3 24389 24390 . - . intron_id 2 ; splice_site "AG" KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local cds 24364 24388 . - . KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local exon 24364 24388 . - . insertions 0 ; deletions 0 KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local splice5 24362 24363 . - . intron_id 4 ; splice_site "GT" KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local intron 24114 24363 . - . intron_id 4 KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local splice3 24114 24115 . - . intron_id 3 ; splice_site "AG" KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local cds 24054 24113 . - . KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local exon 24054 24113 . - . insertions 0 ; deletions 0 KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local splice5 24052 24053 . - . intron_id 5 ; splice_site "GT" KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local intron 23975 24053 . - . intron_id 5 KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local splice3 23975 23976 . - . intron_id 4 ; splice_site "AG" KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local cds 23948 23974 . - . KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local exon 23948 23974 . - . insertions 0 ; deletions 0 KB228918.1:subseq(4487468,25098) exonerate:protein2genome:local similarity 23948 25098 837 - . alignment_id 1 ; Query ; Align 25099 28 96 ; Align 24917 61 144 ; Align 24671 109 150 ; Align 24388 160 24 ; Align 24114 168 60 ; Align 23975 188 27 # --- END OF GFF DUMP --- # -- completed exonerate analysis