Command line: [exonerate -m p2g --showtargetgff -q ../Sel.human/SELI.fa -t gi|397463253|gb|JH732248.1|subseq.fa]
Hostname: [ws101062]
C4 Alignment:
------------
Query: SPP00000074_2.0 # Protein # Selenoprotein I (SelI) # Human (Homo sapiens)
Target: gi|397463253|gb|JH732248.1|:subseq(0,80000) Alligator mississippiensis unplaced genomic scaffold scaffold-1979, whole genome shotgun sequence:[revcomp]
Model: protein2genome:local
Raw score: 1582
Query range: 18 -> 397
Target range: 44683 -> 22986
19 : LysTyrSerAlaValAspThrAsnProLeuSerLeuTyrValMetHisProPheTrpAsn : 38
:!!|||||||||||||||!:!|||||||||||||||||||||||||||||||||||||||
GlnTyrSerAlaValAspSerAsnProLeuSerLeuTyrValMetHisProPheTrpAsn
44683 : CAGTACAGTGCCGTGGACAGCAACCCGCTCTCCCTGTACGTCATGCATCCGTTCTGGAAC : 44626
39 : ThrIleValLys >>>> Target Intron 1 >>>> ValPheProThrTrpLeuA : 49
|||:!:|||||| 331 bp :!!||||||||||||||||
ThrValValLys++ ++IlePheProThrTrpLeuA
44625 : ACGGTGGTGAAGgt.........................agATTTTCCCCACTTGGCTGG : 44262
50 : laProAsnLeuIleThrPheSerGlyPheLeuLeuValValPheAsnPheLeuLeuMetA : 69
||||||||||||||||||||!!!||||||||||||:!!||||||||||||!!!|||||||
laProAsnLeuIleThrPheCysGlyPheLeuLeuLeuValPheAsnPhePheLeuMetA
44261 : CCCCAAATCTGATAACCTTTTGTGGCTTCCTTCTGCTTGTCTTCAACTTCTTCCTCATGG : 44202
70 : laTyrPheAspProAspPheTyrAlaSer{A} >>>> Target Intron 2 >>>> : 79
|||||||||||||||||||||||||||||{|} 7707 bp
laTyrPheAspProAspPheTyrAlaSer{A}++ +
44201 : CATACTTTGACCCCGATTTTTATGCTTCT{G}gt.........................a : 36466
80 : {la}ProGlyHisLysHisValProAspTrpValTrpIleValValGlyIleLeuAsnP : 98
{||}|||! !||| !|||||||||:!! ! :!!||||||:!!||||||:!!|||||||
+{la}ProAspHisValHisValProAsnArgIleTrpIleMetValGlyLeuLeuAsnP
36465 : g{CA}CCTGATCATGTGCACGTTCCAAATCGAATATGGATCATGGTGGGTCTCCTCAACT : 36408
99 : heValAlaTyrThrLeu{A} >>>> Target Intron 3 >>>> {sp}GlyValA : 107
||:!!||||||||||||{|} 592 bp {||}|||||||
heMetAlaTyrThrLeu{A}++ ++{sp}GlyValA
36407 : TCATGGCATATACGCTA{G}gt.........................ag{AT}GGTGTCG : 35789
108 : spGlyLysGlnAlaArgArgThrAsnSerSerThrProLeuGlyGluLeuPheAspHisG : 127
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
spGlyLysGlnAlaArgArgThrAsnSerSerThrProLeuGlyGluLeuPheAspHisG
35788 : ATGGGAAGCAAGCTCGCCGAACCAACTCCAGCACCCCACTGGGTGAGCTCTTTGACCACG : 35729
128 : lyLeuAspSerTrpSerCysValTyrPheValValThrValTyrSerIlePheGlyArgG : 147
||||||||||||||:!!|||:!!||||||||||||||||||||||||! !||||||||||
lyLeuAspSerTrpAlaCysMetTyrPheValValThrValTyrSerThrPheGlyArgG
35728 : GCCTGGACAGCTGGGCCTGCATGTACTTCGTCGTGACTGTTTACTCCACCTTCGGCCGGG : 35669
148 : lySerThrGlyValSerValPheValLeuTyrLeuLeuLeuTrpValValLeuPheSerP : 167
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
lySerThrGlyValSerValPheValLeuTyrLeuLeuLeuTrpValValLeuPheSerP
35668 : GATCCACTGGAGTCAGCGTCTTCGTTCTCTATCTCCTTTTATGGGTGGTTTTATTTTCAT : 35609
168 : heIleLeuSerHisTrpGluLysTyrAsnThrGlyIleLeuPheLeuProTrpGlyTyrA : 187
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
heIleLeuSerHisTrpGluLysTyrAsnThrGlyIleLeuPheLeuProTrpGlyTyrA
35608 : TCATCCTCTCCCACTGGGAGAAGTATAACACAGGGATTCTCTTCCTGCCCTGGGGATATG : 35549
188 : spIleSerGlnVal >>>> Target Intron 4 >>>> ThrIleSerPheValTy : 197
|||||||||||:!! 1946 bp |||||||||.!!|||||
spIleSerGlnMet++ ++ThrIleSerIleValTy
35548 : ACATCAGCCAGATGgt.........................agACCATTTCCATTGTCTA : 33573
198 : rIleValThrAlaValValGlyValGluAlaTrpTyrGluProPheLeuPheAsnPheLe : 217
|||||||||||||:!!||||||||||||||||||:!!! !||||||||||||||||||||
rIleValThrAlaIleValGlyValGluAlaTrpHisAlaProPheLeuPheAsnPheLe
33572 : CATAGTGACAGCGATTGTGGGAGTTGAGGCCTGGCACGCGCCTTTCCTGTTTAATTTCTT : 33513
218 : uTyrArgAspLeuPheThrAlaMetIleIle{G} >>>> Target Intron 5 >>> : 228
|||||||||||||||||||.!!||||||:!!{|} 3191 bp
uTyrArgAspLeuPheThrThrMetIleLeu{G}++
33512 : ATATAGAGACCTATTCACTACAATGATTCTT{G}gt........................ : 33477
229 : > {ly}CysAlaLeuCysValThrLeuProMetSerLeuLeuAsnPhePhe{Ar} >> : 244
{||}||||||||| ||||||||||||||||||:!!! !||||||!:!{!:}
++{ly}CysAlaLeuThrValThrLeuProMetSerValTyrAsnPheTyr{Ly}++
33476 : .ag{GT}TGTGCACTCACAGTGACTCTGCCAATGAGCGTGTACAACTTTTAC{AA}gt.. : 30237
245 : >> Target Intron 6 >>>> {g}SerTyrLysAsnAsnThrLeuLysLeuAsnSe : 255
1908 bp {!}:!!||||||!:!||||||||||||! !:!!||
++{s}AlaTyrLysSerAsnThrLeuLysHisHisSe
30236 : .......................ag{G}GCCTATAAAAGTAACACCCTGAAGCACCACTC : 28300
256 : rValTyrGluAlaMetValProLeuPheSerProCysLeuLeuPheIleLeuSerThrAl : 275
|:!!|||||| !|||:!!|||!!!.!!|||||| ||||||||| !|||!!!|||.!
rLeuTyrGluIleMetLeuProPheLeuSerProValLeuLeuPheAlaLeuCysThrTh
28299 : ACTCTATGAAATAATGCTGCCATTTCTCTCACCGGTGTTACTGTTTGCTCTGTGCACTAC : 28240
276 : aTrpIleLeuTrpSerProSerAspIleLeuGluLeuHisProArgValPheTyrPheMe : 295
!||||||!!! !|||||||||||||||||||||:!!|||||||||:!!|||||||||||
rTrpIlePheValSerProSerAspIleLeuGluValHisProArgLeuPheTyrPheMe
28239 : CTGGATTTTCGTGTCGCCATCGGACATCCTGGAGGTCCACCCTCGGCTCTTCTACTTCAT : 28180
296 : tValGlyThrAlaPheAlaAsnSerThr >>>> Target Intron 7 >>>> Cys : 305
||||||||||||||||||||||! !:!! 624 bp |||
tValGlyThrAlaPheAlaAsnIleSer++ ++Cys
28179 : GGTTGGAACAGCCTTTGCTAACATTTCAgt.........................agTGC : 27526
306 : GlnLeuIleValCysGlnMetSerSerThrArgCysProThrLeuAsnTrpLeuLeuVal : 325
||||||||||||||||||||||||!:!|||||||||! ! !!|||||||||:!!|||:!!
GlnLeuIleValCysGlnMetSerAsnThrArgCysGlnProLeuAsnTrpMetLeuLeu
27525 : CAGCTGATTGTGTGTCAGATGAGCAACACCCGATGCCAGCCTCTGAACTGGATGCTGCTG : 27466
326 : ProLeuPheLeuValValLeuValValAsnLeuGlyValAlaSerTyrValGluSerIle : 345
|||||| :!!||||||!!!|||||| !! !|||:!!||| !! !! !|||!!!|||
ProLeuAlaValValValPheValValLeuTyrGlyLeuAlaProAsnAsnGluThrIle
27465 : CCACTAGCGGTGGTTGTTTTCGTGGTGCTCTATGGATTAGCACCAAATAATGAAACAATT : 27406
346 : LeuLeuTyrThrLeuThrThrAlaPheThrLeuAlaHisIleHisTyrGlyValArgVal : 365
||||||||||||||||||.!!!.!.!!|||:!!||||||||||||||||||||| !!|||
LeuLeuTyrThrLeuThrAlaValIleThrValAlaHisIleHisTyrGlyValCysVal
27405 : CTCCTGTACACATTAACAGCAGTCATCACCGTGGCGCACATTCACTACGGAGTGTGTGTG : 27346
366 : >>>> Target Intron 8 >>>> ValLysGlnLeuSerSerHisPheGlnIleT : 376
4261 bp |||!!.|||||||||!.!||||||.!.|||
++ ++ValAsnGlnLeuSerLysHisPheAsnIleA
27345 : gt.........................agGTGAACCAGCTAAGCAAGCATTTCAATATCC : 23052
377 : yrProPheSerLeuArgLysProAsnSerAspUnkLeuGlyMetGluGluLysAsnIleG : 396
||||||||||||!:!|||! !!:!!!!||| |||! !:!!||||||:!!!!.||||
rgProPheSerLeuLysLysArgSerThrAsp***LeuGluValGluGluGlnLysIleG
23051 : GACCCTTCTCACTAAAGAAGCGCAGTACAGATTGACTAGAAGTGGAAGAACAGAAAATCG : 22992
397 : lyLeu : 397
|||||
lyLeu
22991 : GCCTG : 22987
vulgar: SPP00000074_2.0 18 397 . gi|397463253|gb|JH732248.1|:subseq(0,80000) 44683 22986 - 1582 M 24 72 5 0 2 I 0 327 3 0 2 M 36 108 S 0 1 5 0 2 I 0 7703 3 0 2 S 1 2 M 24 72 S 0 1 5 0 2 I 0 588 3 0 2 S 1 2 M 87 261 5 0 2 I 0 1942 3 0 2 M 36 108 S 0 1 5 0 2 I 0 3187 3 0 2 S 1 2 M 15 45 S 0 2 5 0 2 I 0 1904 3 0 2 S 1 1 M 60 180 5 0 2 I 0 620 3 0 2 M 61 183 5 0 2 I 0 4257 3 0 2 M 32 96
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-15
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local gene 22987 44683 1582 - . gene_id 1 ; sequence SPP00000074_2.0 ; gene_orientation +
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local cds 44612 44683 . - .
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local exon 44612 44683 . - . insertions 0 ; deletions 0
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local splice5 44610 44611 . - . intron_id 1 ; splice_site "GT"
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local intron 44281 44611 . - . intron_id 1
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local splice3 44281 44282 . - . intron_id 0 ; splice_site "AG"
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local cds 44172 44280 . - .
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local exon 44172 44280 . - . insertions 0 ; deletions 0
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local splice5 44170 44171 . - . intron_id 2 ; splice_site "GT"
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local intron 36465 44171 . - . intron_id 2
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local splice3 36465 36466 . - . intron_id 1 ; splice_site "AG"
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local cds 36390 36464 . - .
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local exon 36390 36464 . - . insertions 0 ; deletions 0
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local splice5 36388 36389 . - . intron_id 3 ; splice_site "GT"
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local intron 35798 36389 . - . intron_id 3
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local splice3 35798 35799 . - . intron_id 2 ; splice_site "AG"
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local cds 35535 35797 . - .
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local exon 35535 35797 . - . insertions 0 ; deletions 0
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local splice5 35533 35534 . - . intron_id 4 ; splice_site "GT"
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local intron 33589 35534 . - . intron_id 4
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local splice3 33589 33590 . - . intron_id 3 ; splice_site "AG"
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local cds 33480 33588 . - .
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local exon 33480 33588 . - . insertions 0 ; deletions 0
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local splice5 33478 33479 . - . intron_id 5 ; splice_site "GT"
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local intron 30289 33479 . - . intron_id 5
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local splice3 30289 30290 . - . intron_id 4 ; splice_site "AG"
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local cds 30240 30288 . - .
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local exon 30240 30288 . - . insertions 0 ; deletions 0
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local splice5 30238 30239 . - . intron_id 6 ; splice_site "GT"
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local intron 28332 30239 . - . intron_id 6
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local splice3 28332 28333 . - . intron_id 5 ; splice_site "AG"
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local cds 28151 28331 . - .
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local exon 28151 28331 . - . insertions 0 ; deletions 0
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local splice5 28149 28150 . - . intron_id 7 ; splice_site "GT"
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local intron 27527 28150 . - . intron_id 7
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local splice3 27527 27528 . - . intron_id 6 ; splice_site "AG"
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local cds 27344 27526 . - .
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local exon 27344 27526 . - . insertions 0 ; deletions 0
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local splice5 27342 27343 . - . intron_id 8 ; splice_site "GT"
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local intron 23083 27343 . - . intron_id 8
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local splice3 23083 23084 . - . intron_id 7 ; splice_site "AG"
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local cds 22987 23082 . - .
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local exon 22987 23082 . - . insertions 0 ; deletions 0
gi|397463253|gb|JH732248.1|:subseq(0,80000) exonerate:protein2genome:local similarity 22987 44683 1582 - . alignment_id 1 ; Query SPP00000074_2.0 ; Align 44684 19 72 ; Align 44281 43 108 ; Align 36463 80 72 ; Align 35796 105 261 ; Align 33589 192 108 ; Align 30287 229 45 ; Align 28331 245 180 ; Align 27527 305 183 ; Align 23083 366 96
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis