Command line: [exonerate -m p2g --showtargetgff -q ./SecS.fa -t SecS.carpeta/genomic.fa]
Hostname: [ws101071]
C4 Alignment:
------------
Query: SPP00000065_2.0 # Protein # Selenocysteine synthase (SecS) # Human (Homo sapiens)
Target: gi|472268114|gb|KB716543.1| Leptonychotes weddellii isolate WS11-02 unplaced genomic scaffold scaffold01837, whole genome shotgun sequence
Model: protein2genome:local
Raw score: 2317
Query range: 0 -> 500
Target range: 339255 -> 376509
1 : MetAsnArgGluSerPheAlaAlaGlyGluArgLeuValSerProAlaTyrValArgG : 20
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
MetAsnArgGluSerPheAlaAlaGlyGluArgLeuValSerProAlaTyrValArgG
339256 : ATGAACCGCGAGAGCTTCGCGGCGGGCGAGCGGCTGGTGTCGCCGGCTTATGTGCGAC : 339313
21 : lnGlyCysGluAlaArgArgSerHisGluHisLeuIleArgLeuLeuLeuGluLys : 39
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
lnGlyCysGluAlaArgArgSerHisGluHisLeuIleArgLeuLeuLeuGluLys++
339314 : AGGGCTGTGAGGCCCGCCGCTCGCATGAGCACCTCATACGGCTGCTTCTGGAGAAGgt : 339370
40 : >>>> Target Intron 1 >>>> GlyLysCysProGluAsnGlyTrpAspGluS : 49
808 bp |||||||||||||||:!!|||||||||||||
++GlyLysCysProGluAspGlyTrpAspGluS
339371 : .........................agGGCAAGTGTCCAGAGGATGGTTGGGATGAAA : 340208
50 : erThrLeuGluLeuPheLeuHisGluLeuAlaIleMetAspSerAsnAsnPheLeuGl : 68
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
erThrLeuGluLeuPheLeuHisGluLeuAlaIleMetAspSerAsnAsnPheLeuGl
340209 : GTACACTTGAACTTTTTTTACATGAACTTGCAATCATGGATAGCAACAATTTCCTGGG : 340265
69 : yAsnCysGlyValGlyGluArgGluGlyArgValAlaSerAlaLeuValAlaArgArg : 87
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
yAsnCysGlyValGlyGluArgGluGlyArgValAlaSerAlaLeuValAlaArgArg
340266 : CAATTGTGGTGTGGGAGAAAGGGAAGGGAGAGTGGCATCTGCCTTAGTTGCTCGGCGT : 340322
88 : HisTyr{Ar} >>>> Target Intron 2 >>>> {g}PheIleHisGlyIleG : 96
||||||{||} 2573 bp {|}||||||||||||||||
HisTyr{Ar}++ ++{g}PheIleHisGlyIleG
340323 : CATTAC{AG}gt.........................ag{G}TTCATTCATGGAATTG : 342922
97 : lyArgSerGlyAspIleSerAlaValGlnProLysAlaAlaGlySerSerLeuLeuAs : 115
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
lyArgSerGlyAspIleSerAlaValGlnProLysAlaAlaGlySerSerLeuLeuAs
342923 : GACGATCGGGTGATATTTCTGCTGTGCAGCCAAAAGCTGCAGGTTCTAGCCTTTTGAA : 342979
116 : nLysIleThrAsnSerLeuValLeuAspIleIleLysLeuAla{G} >>>> Targe : 130
|!:!|||||||||||||||||||||||||||||||||||||||{|}
nArgIleThrAsnSerLeuValLeuAspIleIleLysLeuAla{G}++
342980 : CAGAATTACCAATTCTTTGGTCCTGGACATCATAAAGTTGGCT{G}gt.......... : 343027
131 : t Intron 3 >>>> {ly}ValHisThrValAlaAsnCysPheValValProMetA : 143
319 bp {||}|||! !||||||.!!||||||||||||||||||||||
++{ly}ValProThrValThrAsnCysPheValValProMetA
343028 : ...............ag{GT}GTCCCTACAGTGACCAACTGCTTTGTAGTTCCCATGG : 343382
144 : laThrGlyMetSerLeuThrLeuCysPheLeuThrLeuArgHisLysArgProLysAl : 162
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
laThrGlyMetSerLeuThrLeuCysPheLeuThrLeuArgHisLysArgProLysAl
343383 : CAACTGGTATGAGTCTAACCTTGTGTTTCTTAACATTACGACACAAAAGACCAAAGGC : 343439
163 : aLysTyrIleIleTrpProArgIleAspGlnLysSerCysPheLysSerMetIleThr : 181
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
aLysTyrIleIleTrpProArgIleAspGlnLysSerCysPheLysSerMetIleThr
343440 : AAAGTATATTATATGGCCGAGAATAGACCAGAAGTCCTGCTTTAAATCCATGATCACT : 343496
182 : Ala{G} >>>> Target Intron 4 >>>> {ly}PheGluProValValIleG : 190
|||{|} 3077 bp {||}|||||||||||||||||||
Ala{G}++ ++{ly}PheGluProValValIleG
343497 : GCA{G}gt.........................ag{GT}TTTGAGCCTGTGGTGATAG : 346600
191 : luAsnValLeuGluGlyAspGluLeuArgThrAspLeuLysAlaValGluAlaLysVa : 209
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
luAsnValLeuGluGlyAspGluLeuArgThrAspLeuLysAlaValGluAlaLysVa
346601 : AGAATGTTTTAGAAGGTGACGAGCTGCGCACAGACCTGAAAGCAGTGGAGGCTAAAGT : 346657
210 : lGlnGluLeuGlyProAspCysIleLeuCysIleHisSerThrThrSerCysPheAla : 228
|!:!|||||||||||||||! !|||||||||:!!||||||||||||||||||||||||
lArgGluLeuGlyProAspSerIleLeuCysValHisSerThrThrSerCysPheAla
346658 : TCGGGAACTTGGGCCTGATTCCATTCTGTGTGTTCATTCCACTACATCCTGTTTTGCT : 346714
229 : ProArgValProAsp{Ar} >>>> Target Intron 5 >>>> {g}LeuGluG : 237
|||||||||||||||{||} 2879 bp {|}|||||||
ProArgValProAsp{Ar}++ ++{g}LeuGluG
346715 : CCAAGGGTGCCTGAT{AG}gt.........................ag{A}TTAGAAG : 349620
238 : luLeuAlaValIleCysAlaAsnTyrAspIleProHisIleValAsnAsnAlaTyrGl : 256
||||||||||||||||||||||||||! !|||||||||||||||||||||||||||||
luLeuAlaValIleCysAlaAsnTyrGlyIleProHisIleValAsnAsnAlaTyrGl
349621 : AACTGGCTGTGATTTGTGCTAATTACGGCATTCCCCATATAGTCAACAATGCTTATGG : 349677
257 : yValGlnSerSerLysCysMetHisLeuIleGlnGln >>>> Target Intron : 269
||||||||||||||||||||||||||||||||||||| 12501 bp
yValGlnSerSerLysCysMetHisLeuIleGlnGln++
349678 : AGTGCAGTCTTCAAAGTGTATGCACCTCATCCAGCAGgt................... : 349718
270 : 6 >>>> GlyAlaArgValGlyArgIleAspAlaPheValGlnSerLeuAspLysAs : 285
||||||||||||||||||||||||||||||||||||||||||||||||||
++GlyAlaArgValGlyArgIleAspAlaPheValGlnSerLeuAspLysAs
349719 : ......agGGGGCTCGGGTTGGCAGAATAGATGCTTTTGTTCAGAGCTTGGACAAAAA : 362265
286 : nPheMetValProValGlyGlyAlaIleIleAlaGlyPheAsnAspSerPheIleGln : 304
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
nPheMetValProValGlyGlyAlaIleIleAlaGlyPheAsnAspSerPheIleGln
362266 : TTTTATGGTTCCGGTAGGTGGCGCTATAATTGCTGGCTTTAATGATTCCTTCATTCAG : 362322
305 : GluIleSerLysMetTyrPro{G} >>>> Target Intron 7 >>>> {ly}A : 313
|||||||||||||||||||||{|} 133 bp {||}|
GluIleSerLysMetTyrPro{G}++ ++{ly}A
362323 : GAAATCAGCAAGATGTATCCA{G}gt.........................ag{GA}A : 362482
314 : rgAlaSerAlaSerProSerLeuAspValLeuIleThrLeuLeuSerLeuGlySerAs : 332
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
rgAlaSerAlaSerProSerLeuAspValLeuIleThrLeuLeuSerLeuGlySerAs
362483 : GAGCTTCAGCTTCACCTTCTTTAGATGTCCTTATTACTTTATTATCACTTGGATCAAA : 362539
333 : nGlyTyrLysLysLeuLeuLysGluArgLys >>>> Target Intron 8 >>>> : 343
||||||||||||||||||||||||||||||| 9844 bp
nGlyTyrLysLysLeuLeuLysGluArgLys++
362540 : TGGCTATAAGAAGCTATTAAAAGAAAGAAAGgt......................... : 362574
344 : GluMetPheSerTyrLeuSerAsnGlnIleLysLysLeuSerGluAlaTyrAsnGl : 361
|||||||||||||||||||||!:!|||:!!||||||||||||||| !||||||||
++GluMetPheSerTyrLeuSerSerGlnLeuLysLysLeuSerGluAsnTyrAsnGl
362575 : agGAGATGTTTTCATACTTGTCCAGCCAACTAAAGAAGCTGTCAGAAAACTACAATGA : 372470
362 : uArgLeuLeuHisThrProHisAsnProIleSerLeu{A} >>>> Target Intr : 374
|||||||||||||||||||||||||||||||||||||{|} 2199 bp
uArgLeuLeuHisThrProHisAsnProIleSerLeu{A}++
372471 : AAGGCTGTTGCATACACCTCACAATCCTATATCTTTA{G}gt................ : 372512
375 : on 9 >>>> {la}MetThrLeuLysThrLeuAspGluHisArgAspLysAlaValT : 389
{||}:!!|||||||||||||||! !||||||!:!|||!:!|||:!!|
++{la}ValThrLeuLysThrLeuGlyGluHisGlnAspArgAlaIleT
372513 : .........ag{CT}GTGACACTTAAGACACTAGGTGAACACCAAGACAGAGCCATCA : 374753
390 : hrGlnLeuGlySerMetLeuPheThrArgGlnValSerGlyAla{Ar} >>>> Tar : 404
||||||||||||||||||||||||||||||||||||||||||||{||}
hrGlnLeuGlySerMetLeuPheThrArgGlnValSerGlyAla{Ar}++
374754 : CTCAGCTTGGCTCAATGCTTTTTACCAGACAGGTTTCTGGAGCC{AG}gt........ : 374802
405 : get Intron 10 >>>> {g}ValValProLeuGlySerMetGlnThrValSerGl : 416
1409 bp {|}||||||||||||||||||:!!||||||||||||||
++{g}ValValProLeuGlySerValGlnThrValSerGl
374803 : ..................ag{G}GTTGTGCCTCTTGGGTCTGTGCAAACCGTGAGTGG : 376243
417 : yTyrThrPheArgGlyPheMetSerHisThrAsnAsnTyrProCysAlaTyrLeuAsn : 435
|:!!||||||||||||||||||||||||.!!|||:!!|||||||||||||||||||||
yHisThrPheArgGlyPheMetSerHisAlaAsnHisTyrProCysAlaTyrLeuAsn
376244 : CCACACTTTCCGAGGCTTTATGTCACATGCAAATCATTACCCTTGCGCTTACCTCAAT : 376300
436 : AlaAlaSerAlaIleGlyMetLysMetGlnAspValAspLeuPheIleLysArgLeuA : 455
||||||:!!|||||||||||||||! ||||||||||||||||||!!:||||||||||
AlaAlaAlaAlaIleGlyMetLysThrGlnAspValAspLeuPheMetLysArgLeuA
376301 : GCTGCAGCGGCCATCGGAATGAAGACACAGGATGTGGACTTGTTCATGAAGAGACTTG : 376360
456 : spArgCysLeuLysAlaValArgLysGluArgSerLysGluSerAsp<-><-><-><- : 471
||!:!|||||||||.!!||||||||||||!:!!.!|||||||||:!!
spLysCysLeuLysThrValArgLysGluGlnLysLysGluSerAsnAlaSerGlyVa
376361 : ACAAGTGTTTAAAGACAGTAAGGAAAGAACAAAAGAAAGAGAGTAATGCATCTGGAGT : 376417
472 : >AspAsnTyrAspLysThrGluAspValAspIleGluGluMetAlaLeuLysLeuAsp : 489
||||||||||||! !|||:!!||||||||||||||||||||||||||||||||||||
lAspAsnTyrAspThrThrLysAspValAspIleGluGluMetAlaLeuLysLeuAsp
376418 : TGACAATTACGACACAACTAAAGATGTGGATATTGAAGAAATGGCTTTAAAACTAGAT : 376474
490 : AsnValLeuLeuAspThrTyrGlnAspAlaSer : 500
||||||||||||||||||||||||:!!:!!|||
AsnValLeuLeuAspThrTyrGlnAsnSerSer
376475 : AATGTGCTTCTTGACACGTACCAGAATTCTTCA : 376509
vulgar: SPP00000065_2.0 0 500 . gi|472268114|gb|KB716543.1| 339255 376509 + 2317 M 38 114 5 0 2 I 0 804 3 0 2 M 51 153 S 0 2 5 0 2 I 0 2569 3 0 2 S 1 1 M 39 117 S 0 1 5 0 2 I 0 315 3 0 2 S 1 2 M 52 156 S 0 1 5 0 2 I 0 3073 3 0 2 S 1 2 M 50 150 S 0 2 5 0 2 I 0 2875 3 0 2 S 1 1 M 34 102 5 0 2 I 0 12497 3 0 2 M 43 129 S 0 1 5 0 2 I 0 129 3 0 2 S 1 2 M 30 90 5 0 2 I 0 9840 3 0 2 M 31 93 S 0 1 5 0 2 I 0 2195 3 0 2 S 1 2 M 29 87 S 0 2 5 0 2 I 0 1405 3 0 2 S 1 1 M 66 198 G 0 12 M 30 90
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-18
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local gene 339256 376509 2317 + . gene_id 1 ; sequence SPP00000065_2.0 ; gene_orientation +
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local cds 339256 339369 . + .
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local exon 339256 339369 . + . insertions 0 ; deletions 0
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice5 339370 339371 . + . intron_id 1 ; splice_site "GT"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local intron 339370 340177 . + . intron_id 1
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice3 340176 340177 . + . intron_id 0 ; splice_site "AG"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local cds 340178 340332 . + .
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local exon 340178 340332 . + . insertions 0 ; deletions 0
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice5 340333 340334 . + . intron_id 2 ; splice_site "GT"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local intron 340333 342905 . + . intron_id 2
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice3 342904 342905 . + . intron_id 1 ; splice_site "AG"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local cds 342906 343024 . + .
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local exon 342906 343024 . + . insertions 0 ; deletions 0
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice5 343025 343026 . + . intron_id 3 ; splice_site "GT"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local intron 343025 343343 . + . intron_id 3
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice3 343342 343343 . + . intron_id 2 ; splice_site "AG"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local cds 343344 343502 . + .
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local exon 343344 343502 . + . insertions 0 ; deletions 0
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice5 343503 343504 . + . intron_id 4 ; splice_site "GT"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local intron 343503 346579 . + . intron_id 4
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice3 346578 346579 . + . intron_id 3 ; splice_site "AG"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local cds 346580 346733 . + .
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local exon 346580 346733 . + . insertions 0 ; deletions 0
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice5 346734 346735 . + . intron_id 5 ; splice_site "GT"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local intron 346734 349612 . + . intron_id 5
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice3 349611 349612 . + . intron_id 4 ; splice_site "AG"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local cds 349613 349715 . + .
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local exon 349613 349715 . + . insertions 0 ; deletions 0
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice5 349716 349717 . + . intron_id 6 ; splice_site "GT"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local intron 349716 362216 . + . intron_id 6
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice3 362215 362216 . + . intron_id 5 ; splice_site "AG"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local cds 362217 362346 . + .
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local exon 362217 362346 . + . insertions 0 ; deletions 0
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice5 362347 362348 . + . intron_id 7 ; splice_site "GT"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local intron 362347 362479 . + . intron_id 7
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice3 362478 362479 . + . intron_id 6 ; splice_site "AG"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local cds 362480 362571 . + .
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local exon 362480 362571 . + . insertions 0 ; deletions 0
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice5 362572 362573 . + . intron_id 8 ; splice_site "GT"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local intron 362572 372415 . + . intron_id 8
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice3 372414 372415 . + . intron_id 7 ; splice_site "AG"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local cds 372416 372509 . + .
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local exon 372416 372509 . + . insertions 0 ; deletions 0
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice5 372510 372511 . + . intron_id 9 ; splice_site "GT"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local intron 372510 374708 . + . intron_id 9
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice3 374707 374708 . + . intron_id 8 ; splice_site "AG"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local cds 374709 374799 . + .
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local exon 374709 374799 . + . insertions 0 ; deletions 0
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice5 374800 374801 . + . intron_id 10 ; splice_site "GT"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local intron 374800 376208 . + . intron_id 10
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local splice3 376207 376208 . + . intron_id 9 ; splice_site "AG"
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local cds 376209 376509 . + .
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local exon 376209 376509 . + . insertions 12 ; deletions 0
gi|472268114|gb|KB716543.1| exonerate:protein2genome:local similarity 339256 376509 2317 + . alignment_id 1 ; Query SPP00000065_2.0 ; Align 339256 1 114 ; Align 340178 39 153 ; Align 342907 91 117 ; Align 343346 131 156 ; Align 346582 184 150 ; Align 349614 235 102 ; Align 362217 269 129 ; Align 362482 313 90 ; Align 372416 343 93 ; Align 374711 375 87 ; Align 376210 405 198 ; Align 376420 471 90
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis