Command line: [exonerate -m p2g --showtargetgff -q sel530/sel530_x.fa -t sel530/SUBSEQ/CM004421.1_0_subseq.txt --exhaustive] Hostname: [ws101071u] C4 Alignment: ------------ Query: SPP00000634_2.0 Protein Selenoprotein H (SELENOH) Zebrafish Target: CM004421.1:subseq(24724759,275134) Ictalurus punctatus breed USDA103 chromosome 8, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 352 Query range: 0 -> 127 Target range: 234085 -> 24476 1 : MetAlaThrArgGlyLysSerAlaArgLysArgLysAlaAspSerAsp >>>> Tar : 17 :!::!! !||||||!:!! ! ! !||||||!:!|||||||||||| LeuSerPheArgGlyArgIleGlnSerLysArgArgAlaAspSerAsp+- 234085 : CTTTCATTCAGAGGCAGAATCCAGTCCAAGCGCAGAGCGGACAGTGATgc........ : 234035 18 : get Intron 1 >>>> Glu{L} >>>> Target Intron 2 >>>> {ys} : 18 41845 bp |||{!} 84561 bp {:!} ++Glu{A}++ ++{rg} 234034 : .................agGAA{A}gt.........................ag{GG} : 107627 19 : GluLysLeuAspAspAla >>>> Target Intron 3 >>>> >>>> Targ : 25 !!:|||:!!:!!||| ! 65534 bp AspLysIleAsnAspMet++ ++++ 107626 : GACAAGATCAACGACATGgt.........................aggt......... : 42071 26 : et Intron 4 >>>> LysLysGluLysLeuGluAspLysAspGluGluThrGlyL : 38 16129 bp ! |||! !!!. !! !!:::!!!:!!:!!: !|||! ++AspLysGlyAsnLysGlyGluArgGluAspAspGluGlyG 42070 : ................agGATAAAGGAAACAAGGGTGAACGGGAGGATGATGAAGGCC : 25905 39 : euArgValValIleGluHis{Cy} >>>> Target Intron 5 >>>> {s}Ly : 46 !||||||:!!|||||||||{||} 738 bp {|}|| lnArgValIleIleGluHis{Cy}++ ++{s}Ly 25904 : AGAGAGTAATCATCGAACAC{TG}gt.........................ag{t}aa : 25143 47 : sSerUnkArgValTyrGlyArgAsnAlaValValValArgGluAlaLeuAlaAspSer : 65 |||| |||||||||||||||||||||! !!.!||||||||||||||| !..!:!! sSer***ArgValTyrGlyArgAsnAlaAspAlaValArgGluAlaLeuLeuSerAla 25142 : AAGCTGACGTGTGTATGGGCGGAATGCCGATGCTGTGCGTGAGGCTCTCCTCTCCGCA : 25086 66 : HisProGluLeuLysValMetIleAsnProHisAsnProArgArgAsnSerPheGluI : 85 |||||||||||| ! |||:!!:!!||||||.!.!!.|||||||||||||||||||||: HisProGluLeuHisValValLeuAsnProGluLysProArgArgAsnSerPheGluV 25085 : CATCCTGAGCTTCATGTGGTGCTCAACCCCGAGAAGCCTCGACGCAACAGCTTTGAGG : 25026 86 : leThrLeuMetAspGlyGluArg{A} >>>> Target Intron 6 >>>> {la : 93 !!||||||!!:!!:|||:!!!:!{!} 421 bp { ! alThrLeuIleGluGlyLysLys{G}++ ++{lu 25025 : TCACTCTAATTGAGGGGAAGAAA{G}gt.........................ag{AG : 24580 94 : }AspValLeuTrpSerGlyIleLysLysGlyProProArgLysLeuLysPheProGlu : 112 } |||||||||!!!|||:!!|||||||||||||||||||||||||||||||||||| }LeuValLeuTrpThrGlyLeuLysLysGlyProProArgLysLeuLysPheProGlu 24579 : }CTGGTGTTGTGGACTGGTCTCAAGAAAGGTCCTCCCCGTAAACTGAAGTTTCCAGAG : 24524 113 : ProAlaGluValValThrAlaLeuLysGlnAlaLeuGluLysGlu : 127 ||||||||||||||||||||||||:!!:!!||||||:!!!..:!! ProAlaGluValValThrAlaLeuGluGluAlaLeuLysSerLys 24523 : CCTGCTGAGGTTGTAACTGCCCTGGAGGAGGCCCTAAAGAGCAAG : 24477 vulgar: SPP00000634_2.0 0 127 . CM004421.1:subseq(24724759,275134) 234085 24476 - 352 M 16 48 5 0 2 I 0 41841 3 0 2 M 1 3 S 0 1 5 0 2 I 0 84557 3 0 2 S 1 2 M 6 18 5 0 2 I 0 65530 3 0 2 5 0 2 I 0 16125 3 0 2 M 20 60 S 0 2 5 0 2 I 0 734 3 0 2 S 1 1 M 47 141 S 0 1 5 0 2 I 0 417 3 0 2 S 1 2 M 34 102 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2016-11-14 ##type DNA # # # seqname source feature start end score strand frame attributes # CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local gene 24477 234085 352 - . gene_id 1 ; sequence SPP00000634_2.0 ; gene_orientation + CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local cds 234038 234085 . - . CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local exon 234038 234085 . - . insertions 0 ; deletions 0 CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local splice5 234036 234037 . - . intron_id 1 ; splice_site "GC" CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local intron 192193 234037 . - . intron_id 1 CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local splice3 192193 192194 . - . intron_id 0 ; splice_site "AG" CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local cds 192189 192192 . - . CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local exon 192189 192192 . - . insertions 0 ; deletions 0 CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local splice5 192187 192188 . - . intron_id 2 ; splice_site "GT" CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local intron 107628 192188 . - . intron_id 2 CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local splice3 107628 107629 . - . intron_id 1 ; splice_site "AG" CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local cds 107608 107627 . - . CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local exon 107608 107627 . - . insertions 0 ; deletions 0 CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local splice5 107606 107607 . - . intron_id 3 ; splice_site "GT" CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local intron 42074 107607 . - . intron_id 3 CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local splice3 42074 42075 . - . intron_id 2 ; splice_site "AG" CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local splice5 42072 42073 . - . intron_id 4 ; splice_site "GT" CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local intron 25945 42073 . - . intron_id 4 CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local splice3 25945 25946 . - . intron_id 3 ; splice_site "AG" CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local cds 25883 25944 . - . CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local exon 25883 25944 . - . insertions 0 ; deletions 0 CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local splice5 25881 25882 . - . intron_id 5 ; splice_site "GT" CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local intron 25145 25882 . - . intron_id 5 CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local splice3 25145 25146 . - . intron_id 4 ; splice_site "ag" CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local cds 25002 25144 . - . CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local exon 25002 25144 . - . insertions 0 ; deletions 0 CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local splice5 25000 25001 . - . intron_id 6 ; splice_site "GT" CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local intron 24581 25001 . - . intron_id 6 CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local splice3 24581 24582 . - . intron_id 5 ; splice_site "AG" CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local cds 24477 24580 . - . CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local exon 24477 24580 . - . insertions 0 ; deletions 0 CM004421.1:subseq(24724759,275134) exonerate:protein2genome:local similarity 24477 234085 352 - . alignment_id 1 ; Query SPP00000634_2.0 ; Align 234086 1 48 ; Align 192193 17 3 ; Align 107626 19 18 ; Align 25945 25 60 ; Align 25144 46 141 ; Align 24579 94 102 # --- END OF GFF DUMP --- # -- completed exonerate analysis