Command line: [exonerate -m p2g --showtargetgff -q SELENOP.fa -t SELENOP.subseq.fa] Hostname: [ws116074U] C4 Alignment: ------------ Query: SPP00000082_2.0 # Protein # Selenoprotein P (SELENOP) # Human Target: JSZB01008296.1:subseq(460000,100000) Manis javanica isolate MP_PG03-UM SCAFFOLD9631, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 1451 Query range: 0 -> 381 Target range: 63153 -> 57464 1 : MetTrpArgSerLeuGlyLeuAlaLeuAlaLeuCysLeuLeuProSerGlyGlyThrGlu : 20 |||||| ...|||||||||||||||||||||||||||||||||.!!|||||||||! ! MetTrpGlyGlyLeuGlyLeuAlaLeuAlaLeuCysLeuLeuProGlyGlyGlyThrGly 63153 : AtgtggggaggcctggggctTGCCCTGGCCCTCTGTCTCCTCCCGGGGGGAGGAACGGGG : 63096 21 : SerGlnAspGlnSerSerLeuCysLysGlnProProAlaTrpSerIleArgAspGlnAsp : 40 ||||||! |||||||||||||||||||||||||||||||||!!!:!:|||! !|||||| SerGlnGlyGlnSerSerLeuCysLysGlnProProAlaTrpThrValArgGlyGlnAsp 63095 : AGCCAGGGGCAGAGCTCCCTCTGTAAGCAGCCCCCAGCCTGGACCGTGAGGGGCCAAGAT : 63036 41 : ProMetLeuAsnSerAsnGlySerValThrValValAlaLeuLeuGlnAlaSerUnkTyr : 60 ||||||||||||||| !|||||||||||||||||||||||||||||||||||| :!! ProMetLeuAsnSerValGlySerValThrValValAlaLeuLeuGlnAlaSer***His 63035 : CCGATGCTGAACTCGGTTGGGTCAGTGACTGTGGTCGCTCTTCTTCAGGCCAGCTGACAC : 62976 61 : LeuCysIleLeuGlnAlaSer{Ly} >>>> Target Intron 1 >>>> {s}Leu : 69 |||||||||||||||||||||{!:} 695 bp {!}||| LeuCysIleLeuGlnAlaSer{Ar}++ ++{g}Leu 62975 : CTGTGCATTCTGCAGGCTTCC{AG}gt.........................ag{A}TTG : 62254 70 : GluAspLeuArgValLysLeuLysLysGluGlyTyrSerAsnIleSerTyrIleValVal : 89 |||||||||||||||||||||:::|||||||||||||||||||||||||||:!!|||||| GluAspLeuArgValLysLeuGluLysGluGlyTyrSerAsnIleSerTyrValValVal 62253 : GAAGACCTGCGAgtaaaattggagaaagaaggaTATTCTAACATCTCCTATGTTGTTGTT : 62194 90 : AsnHisGlnGlyIleSerSerArgLeuLysTyrThrHisLeuLysAsnLysValSerGlu : 109 |||||||||||||||||||||||||||||||||! !|||||||||:!!|||||||||||| AsnHisGlnGlyIleSerSerArgLeuLysTyrIleHisLeuLysAspLysValSerGlu 62193 : AATCATCAAGGAATCTCTTCTCGATTAAAATACATACATCTTAAAGATAAGGTTTCAGAG : 62134 110 : HisIleProValTyrGlnGlnGluGluAsnGlnThrAspValTrpThrLeuLeuAsnGly : 129 :!!||| !!||||||||||||||||||!:!|||||||||||||||||||||||||||||| AsnIleSerValTyrGlnGlnGluGluSerGlnThrAspValTrpThrLeuLeuAsnGly 62133 : AATATTTCTGTTTACCAACAAGAAGAAAGCCAAACAGATGTCTGGACTCTTTTAAATGGA : 62074 130 : SerLysAspAspPheLeuIleTyrAsp{Ar} >>>> Target Intron 2 >>>> : 139 ..!||||||||||||||||||||||||{||} 1262 bp GlnLysAspAspPheLeuIleTyrAsp{Ar}++ ++ 62073 : CAGAAAGATGACTTCCTCATATATGAC{AG}gt.........................ag : 60782 140 : {g}CysGlyArgLeuValTyrHisLeuGlyLeuProPheSerPheLeuThrPheProTyr : 158 {|}||||||||||||||||||!!.|||.!!||||||!:!|||||||||..!||||||||| {g}CysGlyArgLeuValTyrGlnLeuSerLeuProTyrSerPheLeuValPheProTyr 60781 : {a}tgCGGCCGTCTTGTGTATCAACTTAGTTTGCCTTACTCCTTCCTAGTCTTCCCATAT : 60725 159 : ValGluGluAlaIleLysIleAlaTyrCysGluLysLysCysGlyAsnCysSerLeuThr : 178 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||! ValGluGluAlaIleLysIleAlaTyrCysGluLysLysCysGlyAsnCysSerLeuMet 60724 : GTGGAAGAAGCCATTAAGATTGCTTACTGCGAAAAGAAATGTGGAAACTGCTCTCTCAtg : 60665 179 : >>>> Target Intron 3 >>>> ThrLeuLysAspGluAspPheCysLysArgV : 189 2580 bp |||! !:!!||||||||||||||||||!.!| ++ ++ThrProGluAspGluAspPheCysLysAsnV 60664 : gt.........................agACACCAGAGGATGAAGACTTCTGTAAGAATG : 58052 190 : alSerLeuAlaThrValAspLysThrValGluThrProSerProHisTyrHisHisGluH : 209 |||||! !|||||||||!!::!!|||..!|||.!!|||..!|||! !:!!|||||| !| alSerSerAlaThrValGluGlnThrThrGluAlaProGlnProProHisHisHisTrpH 58051 : TATCTTCGGCTACTGTGGAACAGACCACCGAGGCCCCGCAGCCACCTCATCATCACTGGC : 57992 210 : isHisHisAsnHisGlyHisGlnHisLeuGlySerSerGluLeuSerGluAsnGlnGlnP : 229 || !||| ||||||||||||||||||! !|||.!!:!!||||||||||||||||||| isGlyHisValHisGlyHisGlnHisLeuGluSerGlyGlnLeuSerGluAsnGlnGlnP 57991 : ATGGTCATGTGCATGGGCATCAGCATCTTGAAAGTGGTCAGCTTTCAGAGAATCAGCAAC : 57932 230 : roGlyAlaProAsnAlaProThrHisProAlaProProGlyLeuHisHisHisHisLysH : 249 ||! !||||||:!!||||||..!|||||| !!|||||||||||||||||||||||||||| roGluAlaProAspAlaProValHisProProProProGlyLeuHisHisHisHisLysH 57931 : CAGAGGCACCAGATGCTCCTGTGCACCCCCCGCCTCCAGGCCTTCATCACCACCATAAGC : 57872 250 : isLysGlyGlnHisArgGlnGlyHisProGluAsnArgAspMetProAla<->SerGluA : 268 ||||||||!!.!!.||||||||||||||||||||| !!|||||||||||| ||||||. isLysGlyHisGlnArgGlnGlyHisProGluAsn***AspMetProAlaGlySerGluS 57871 : ACAAGGGCCACCAAAGACAGGGTCACCCAGAGAACTGAGATATGCCAGCAGGAAGTGAAA : 57812 269 : spLeuGln<-><->AspLeuGlnLysLysLeuCysArgLysArgCysIleAsnGlnLeuL : 286 .!|||||| ! !! !!:!|||||||||!! |||||| !!|||||||||||||||| erLeuGlnLeuProValProArgLysLysLeu***ArgLysGlyCysIleAsnGlnLeuL 57811 : GTTTACAACTTCCTGTTCCACGAAAAAAGCTCTGACGAAAGGGTTGTATAAACCAATTAC : 57752 287 : euCysLysLeuProThrAspSerGluLeuAlaProArgSerUnkCysCysHisCysArgH : 306 |||||||||||||| !:!!|||||||||||||||!!!||| |||!! |||||||||| euCysLysLeuProGlnAsnSerGluLeuAlaProSerSer***Cys***HisCysArgH 57751 : TCTGCAAGTTGCCCCAAAATTCAGAGTTGGCCCCTAGCAGCTGATGCTGACACTGTCGAC : 57692 307 : isLeuIlePheGluLysThrGlySerAlaIleThrUnkGlnCysLysGluAsnLeuProS : 326 |||||:!!||||||||||||||||||||||||||| |||||||||||||||||||||| isLeuValPheGluLysThrGlySerAlaIleThr***GlnCysLysGluAsnLeuProS 57691 : ACCTGGTATTTGAAAAAACAGGGTCTGCAATCACCTGACAGTGTAAAGAAAACCTCCCCT : 57632 327 : erLeuCysSerUnkGlnGlyLeuArgAlaGluGluAsnIleThrGluSerCysGlnUnkA : 346 ||||||||||| ||||||||| !!!.!:!!||||||:!!! !||||||!! ||| | erLeuCysSer***GlnGlyLeuTrpValGlnGluAsnValIleGluSer***Gln***A 57631 : CTTTATGTAGCTGACAGGGACTTTGGGTACAGGAGAACGTCATTGAATCTTGACAGTGAC : 57572 347 : rgLeuProProAlaAlaUnkGlnIleSerGlnGlnLeuIleProThrGluAlaSerAlaS : 366 |||||||| !!|||||| ||| !||||||||||||! |||||||||||||||.!!! rgLeuProAlaAlaAla***GlnAlaSerGlnGlnLeuLysProThrGluAlaSerThrA 57571 : GTTTGCCTGCAGCTGCCTGACAGGCAAGTCAGCAGCTAAAGCCCACAGAAGCCAGCACCA : 57512 367 : erUnkArgUnkLysAsnGlnAlaLysLysUnkGluUnkProSerAsn : 381 :! !!! ||||||:!!|||:!!! ! :!! ||||||||| sn***Ser***LysAsnLysAlaGluMet***Lys***ProSerAsn 57511 : ATTGAAGCTGAAAAAATAAGGCAGAAATGTGAAAGTGACCTtcaaac : 57465 vulgar: SPP00000082_2.0 0 381 . JSZB01008296.1:subseq(460000,100000) 63153 57464 - 1451 M 67 201 S 0 2 5 0 2 I 0 691 3 0 2 S 1 1 M 70 210 S 0 2 5 0 2 I 0 1258 3 0 2 S 1 1 M 39 117 5 0 2 I 0 2576 3 0 2 M 87 261 G 0 3 M 5 15 G 0 6 M 111 333 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2016-11-18 ##type DNA # # # seqname source feature start end score strand frame attributes # JSZB01008296.1:subseq(460000,100000) exonerate:protein2genome:local gene 57465 63153 1451 - . gene_id 1 ; sequence SPP00000082_2.0 ; gene_orientation + JSZB01008296.1:subseq(460000,100000) exonerate:protein2genome:local cds 62951 63153 . - . JSZB01008296.1:subseq(460000,100000) exonerate:protein2genome:local exon 62951 63153 . - . insertions 0 ; deletions 0 JSZB01008296.1:subseq(460000,100000) exonerate:protein2genome:local splice5 62949 62950 . - . intron_id 1 ; splice_site "GT" JSZB01008296.1:subseq(460000,100000) exonerate:protein2genome:local intron 62256 62950 . - . intron_id 1 JSZB01008296.1:subseq(460000,100000) exonerate:protein2genome:local splice3 62256 62257 . - . intron_id 0 ; splice_site "aG" JSZB01008296.1:subseq(460000,100000) exonerate:protein2genome:local cds 62043 62255 . - . JSZB01008296.1:subseq(460000,100000) exonerate:protein2genome:local exon 62043 62255 . - . insertions 0 ; deletions 0 JSZB01008296.1:subseq(460000,100000) exonerate:protein2genome:local splice5 62041 62042 . - . intron_id 2 ; splice_site "GT" JSZB01008296.1:subseq(460000,100000) exonerate:protein2genome:local intron 60781 62042 . - . intron_id 2 JSZB01008296.1:subseq(460000,100000) exonerate:protein2genome:local splice3 60781 60782 . - . intron_id 1 ; splice_site "ag" JSZB01008296.1:subseq(460000,100000) exonerate:protein2genome:local cds 60663 60780 . - . JSZB01008296.1:subseq(460000,100000) exonerate:protein2genome:local exon 60663 60780 . - . insertions 0 ; deletions 0 JSZB01008296.1:subseq(460000,100000) exonerate:protein2genome:local splice5 60661 60662 . - . intron_id 3 ; splice_site "gt" JSZB01008296.1:subseq(460000,100000) exonerate:protein2genome:local intron 58083 60662 . - . intron_id 3 JSZB01008296.1:subseq(460000,100000) exonerate:protein2genome:local splice3 58083 58084 . - . intron_id 2 ; splice_site "AG" JSZB01008296.1:subseq(460000,100000) exonerate:protein2genome:local cds 57465 58082 . - . JSZB01008296.1:subseq(460000,100000) exonerate:protein2genome:local exon 57465 58082 . - . insertions 9 ; deletions 0 JSZB01008296.1:subseq(460000,100000) exonerate:protein2genome:local similarity 57465 63153 1451 - . alignment_id 1 ; Query SPP00000082_2.0 ; Align 63154 1 201 ; Align 62255 69 210 ; Align 60780 140 117 ; Align 58083 179 261 ; Align 57819 266 15 ; Align 57798 271 333 # --- END OF GFF DUMP --- # -- completed exonerate analysis