Command line: [exonerate -m p2g --showtargetgff -q ./SPP00000377_2.0.fa -t ./SPP00000377_2.0/fastasubseq/KV389887.1_fastasubseq.fa]
Hostname: [ws101092U]
C4 Alignment:
------------
Query: SPP00000377_2.0 # Protein # Thioredoxin reductase 2 (TXNRD2) # Marmoset
Target: KV389887.1:subseq(389251,100209) Cebus capucinus imitator isolate Cc_AM_T3 unplaced genomic scaffold Scaffold461, whole genome shotgun sequence
Model: protein2genome:local
Raw score: 2188
Query range: 13 -> 457
Target range: 17011 -> 68096
14 : SerGlyGlnTrpAspTyrAspLeuLeuValIleGlyGlyGlySerGlyGlyLeuAlaCys : 33
:!!|||||||||||||||||||||||||||||||||||||||||||||||||||||||||
AlaGlyGlnTrpAspTyrAspLeuLeuValIleGlyGlyGlySerGlyGlyLeuAlaCys
17012 : GCAGGTCAGTGGGACTACGATCTCCTGGTGATTGGCGGGGGATCTGGCGGCCTGGCTTGT : 17069
34 : AlaLysGlu{A} >>>> Target Intron 1 >>>> {la}AlaGlnLeuGlyArg : 42
|||||||||{|} 9186 bp {||}|||||||||||||||
AlaLysGlu{A}++ ++{la}AlaGlnLeuGlyArg
17070 : GCCAAGGAA{G}gt.........................ag{CT}GCCCAGCTGGGAAGG : 26282
43 : LysValAlaValValAspTyrValGluProSerProArg{G} >>>> Target Intr : 56
|||||||||||||||||||||||||||||||||||||||{|} 780 bp
LysValAlaValValAspTyrValGluProSerProArg{G}++
26283 : AAGGTGGCCGTGGTAGACTATGTGGAACCTTCTCCCCGA{G}gt................ : 26327
57 : on 2 >>>> {ly}ThrArgTrpGlyLeuGlyGlyThrCysValAsnValGlyCysIle : 71
{||}|||||||||||||||||||||||||||||||||||||||||||||
++{ly}ThrArgTrpGlyLeuGlyGlyThrCysValAsnValGlyCysIle
26328 : .........ag{GC}ACCCGGTGGGGCCTCGGCGGCACCTGCGTCAACGTCGGCTGCATT : 27149
72 : ProLysLysLeuMetHisGlnAlaAlaLeuLeuGlyGlyLeuIleArgAspAlaProHis : 91
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ProLysLysLeuMetHisGlnAlaAlaLeuLeuGlyGlyLeuIleArgAspAlaProHis
27150 : CCCAAGAAGCTGATGCACCAGGCGGCGCTGCTGGGGGGCCTGATCCGAGACGCCCCCCAT : 27209
92 : TyrGlyTrpGluValAlaGlnProValProHisAsp{Tr} >>>> Target Intron : 104
||||||||||||||||||||||||||||||||||||{||} 802 bp
TyrGlyTrpGluValAlaGlnProValProHisAsp{Tr}++
27210 : TACGGCTGGGAGGTGGCCCAGCCTGTGCCGCATGAC{TG}gt.................. : 27252
105 : 3 >>>> {p}ArgLysMetAlaGluAlaValGlnAsnHisValLysSerLeuAsnTrp : 120
{|}||||||||||||||||||||||||||||||||||||||||||||||||
++{p}ArgLysMetAlaGluAlaValGlnAsnHisValLysSerLeuAsnTrp
27253 : .......ag{G}AGGAAGATGGCAGAAGCTGTTCAAAATCACGTGAAATCCTTGAACTGG : 28098
121 : GlyHisArgValGlnLeuHisAsp{Ar} >>>> Target Intron 4 >>>> {g} : 129
||||||||||||||||||||||||{||} 7390 bp {|}
GlyHisArgValGlnLeuHisAsp{Ar}++ -+{g}
28099 : GGCCACCGCGTCCAGCTGCACGAC{AG}gt.........................tg{A} : 35517
130 : GlnIleGluGlyAlaLeuGluTyrGlyIleThrSerAspAspIlePheTrpLeuLysGlu : 149
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
GlnIleGluGlyAlaLeuGluTyrGlyIleThrSerAspAspIlePheTrpLeuLysGlu
35518 : CAGATCGAAGGTGCCTTGGAATATGGAATCACAAGCGATGACATCTTCTGGCTGAAGGAG : 35575
150 : SerProGlyLys{Th} >>>> Target Intron 5 >>>> {r}LeuValValGly : 158
||||||||||||{||} 10650 bp {|}||||||||||||
SerProGlyLys{Th}++ ++{r}LeuValValGly
35576 : TCCCCTGGAAAA{AC}gt.........................ag{G}TTGGTGGTCGGG : 46252
159 : AlaSer{T} >>>> Target Intron 6 >>>> {yr}ValAlaLeuGluCysAla : 167
||||||{|} 1038 bp {||}||||||||||||||||||
AlaSer{T}++ ++{yr}ValAlaLeuGluCysAla
46253 : GCCAGC{T}gt.........................ag{AC}GTGGCCCTGGAGTGTGCT : 47317
168 : GlyPheLeuThrGlyIleGlyLeuAspValThrValMetMetArgSerIleProLeuArg : 187
|||||||||||||||||||||||||||..!||||||||||||||||||||||||||||||
GlyPheLeuThrGlyIleGlyLeuAspThrThrValMetMetArgSerIleProLeuArg
47318 : GGCTTCCTCACCGGGATCGGGCTGGACACCACCGTCATGATGCGAAGCATCCCCCTCCGC : 47377
188 : GlyPheAspGln >>>> Target Intron 7 >>>> GlnMetSerSerLeuValT : 198
|||||||||||| 2611 bp |||||||||||||||||||
GlyPheAspGln++ ++GlnMetSerSerLeuValT
47378 : GGCTTTGACCAGgt.........................agCAAATGTCCTCCTTGGTCA : 50021
199 : hrGluHisMetAlaSerHisGlyThrArgPheLeuArgGlyCysThrProSerGlnValA : 218
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
hrGluHisMetAlaSerHisGlyThrArgPheLeuArgGlyCysThrProSerGlnValA
50022 : CGGAGCACATGGCATCTCATGGCACCCGGTTCCTGAGGGGCTGCACCCCCTCCCAAGTCA : 50081
219 : rgArgLeuLeuAspGlyGlnLeuGlnValThrTrpGluAspHisThrThrGlyLysGluG : 238
||||||||! !|||||||||||||||||||||||||||||||||||||||||||||||||
rgArgLeuProAspGlyGlnLeuGlnValThrTrpGluAspHisThrThrGlyLysGluG
50082 : GGAGGCTCCCAGACGGCCAGCTGCAGGTCACCTGGGAGGACCACACCACTGGCAAGGAGG : 50141
239 : lyThrGlyThrPheAsnThrValLeuTrpAlaVal{G} >>>> Target Intron 8 : 250
|||||||||||||||||||||||||||||||||||{|} 11214 bp
lyThrGlyThrPheAsnThrValLeuTrpAlaVal{G}++
50142 : GCACGGGCACCTTCAACACCGTCCTGTGGGCCGTA{G}gt.................... : 50180
251 : >>>> {ly}ArgValProAspThrArgSerLeuAsnLeuGluLysAlaGlyValAspT : 267
{||}|||||||||||||||||||||||||||||||||||||||||||||||||
++{ly}ArgValProAspThrArgSerLeuAsnLeuGluLysAlaGlyValAspT
50181 : .....ag{GT}CGAGTTCCAGACACCAGAAGTCTGAATTTGGAGAAGGCTGGGGTAGACA : 61442
268 : hrSerProAsnThrGlnLysIleLeuValAspSerArgGluAlaThrSerValProHisI : 287
||||||||!:!|||||||||||||||||||||||||||||||||||||||||||||||||
hrSerProSerThrGlnLysIleLeuValAspSerArgGluAlaThrSerValProHisI
61443 : CTAGTCCCAGCACTCAGAAGATCCTGGTGGACTCCCGGGAAGCCACTTCTGTGCCCCACA : 61502
288 : leTyrAlaIleGlyAspValValGlu >>>> Target Intron 9 >>>> GlyAr : 297
|||||||||||||||||||||||||| 3042 bp |||||
leTyrAlaIleGlyAspValValGlu++ ++GlyAr
61503 : TCTATGCCATTGGCGACGTAGTGGAGgt.........................agGGGCG : 64574
298 : gProGluLeuThrProThrAlaValMetAlaGlyArgLeuLeuAlaGlnArgLeuPheGl : 317
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
gProGluLeuThrProThrAlaValMetAlaGlyArgLeuLeuAlaGlnArgLeuPheGl
64575 : GCCTGAGCTGACGCCCACGGCTGTCATGGCTGGGAGGCTCCTGGCACAGCGGCTCTTCGG : 64634
318 : yGlySerSerAspLeuMetAspTyrAspLys >>>> Target Intron 10 >>>> : 328
||||||||||||||||||||||||||||||| 346 bp
yGlySerSerAspLeuMetAspTyrAspLys++ +
64635 : CGGGTCCTCAGACCTGATGGACTATGACAAAgt..........................a : 65011
329 : ValProThrThrValPheThrProLeuGluTyrGlyCysValGlyLeuSerGluGluGl : 347
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
+ValProThrThrValPheThrProLeuGluTyrGlyCysValGlyLeuSerGluGluGl
65012 : gGTTCCCACGACCGTCTTCACCCCACTGGAGTACGGCTGTGTGGGGCTGTCCGAGGAGGA : 65070
348 : uAlaValAlaArgHisGlyGlnGluHisValGlu >>>> Target Intron 11 >> : 359
|||||||||||||||||||||||||!.!|||||| 1689 bp
uAlaValAlaArgHisGlyGlnGluArgValGlu++
65071 : GGCAGTGGCTCGCCATGGGCAGGAGCGTGTTGAGgt........................ : 65108
360 : >> ValTyrHisAlaHisTyrLysProLeuGluPheThrValProGlyArgAspAlaSe : 377
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
++ValTyrHisAlaHisTyrLysProLeuGluPheThrValProGlyArgAspAlaSe
65109 : ..agGTCTATCACGCGCATTATAAACCACTGGAGTTCACAGTGCCTGGGCGGGATGCATC : 66849
378 : rGlnCysTyrValLys >>>> Target Intron 12 >>>> MetValCysLeuAr : 387
|||||||||||||||| 190 bp ||||||||||||||
rGlnCysTyrValLys++ ++MetValCysLeuAr
66850 : CCAGTGTTACGTAAAGgt..........................agATGGTGTGCCTGAG : 67069
388 : gGluProProGlnProValLeuGlyLeuHisPheLeuGlyProAsnAlaGlyGluValTh : 407
|||||||||||||! !||||||||||||||||||||||||||||||||||||||||||||
gGluProProGlnLeuValLeuGlyLeuHisPheLeuGlyProAsnAlaGlyGluValTh
67070 : GGAGCCCCCGCAGCTAGTGCTAGGCCTGCACTTCCTCGGCCCCAACGCAGGCGAAGTTAC : 67129
408 : rGlnGlyPheAlaLeuGlyIle{Ly} >>>> Target Intron 13 >>>> {s}C : 416
||||||||||||||||||||||{||} 815 bp {|}|
rGlnGlyPheAlaLeuGlyIle{Ly}++ ++{s}C
67130 : TCAAGGATTTGCTCTGGGGATC{AA}gt..........................ag{G}T : 67971
417 : ysGlyAlaSerTyrValGlnValMetGlnThrValGlyIleHisProThrCysSerGluG : 436
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ysGlyAlaSerTyrValGlnValMetGlnThrValGlyIleHisProThrCysSerGluG
67972 : GTGGGGCCTCCTATGTGCAGGTGATGCAGACCGTGGGCATCCATCCCACGTGCTCCGAGG : 68031
437 : luValValLysLeuArgIleSerLysArgSerGlyLeuAspProThrValThrGlyCysU : 456
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
luValValLysLeuArgIleSerLysArgSerGlyLeuAspProThrValThrGlyCys*
68032 : AGGTAGTCAAGCTGCGCATCTCCAAGCGCTCAGGCCTGGACCCCACAGTGACAGGCTGCT : 68091
457 : nkGly : 457
|||
**Gly
68092 : GAGGG : 68096
vulgar: SPP00000377_2.0 13 457 . KV389887.1:subseq(389251,100209) 17011 68096 + 2188 M 23 69 S 0 1 5 0 2 I 0 9182 3 0 2 S 1 2 M 18 54 S 0 1 5 0 2 I 0 776 3 0 2 S 1 2 M 47 141 S 0 2 5 0 2 I 0 798 3 0 2 S 1 1 M 24 72 S 0 2 5 0 2 I 0 7386 3 0 2 S 1 1 M 24 72 S 0 2 5 0 2 I 0 10646 3 0 2 S 1 1 M 6 18 S 0 1 5 0 2 I 0 1034 3 0 2 S 1 2 M 30 90 5 0 2 I 0 2607 3 0 2 M 58 174 S 0 1 5 0 2 I 0 11210 3 0 2 S 1 2 M 45 135 5 0 2 I 0 3038 3 0 2 M 32 96 5 0 2 I 0 342 3 0 2 M 31 93 5 0 2 I 0 1685 3 0 2 M 24 72 5 0 2 I 0 186 3 0 2 M 32 96 S 0 2 5 0 2 I 0 811 3 0 2 S 1 1 M 42 126
# --- 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
#
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local gene 17012 68096 2188 + . gene_id 1 ; sequence SPP00000377_2.0 ; gene_orientation +
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local cds 17012 17081 . + .
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local exon 17012 17081 . + . insertions 0 ; deletions 0
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice5 17082 17083 . + . intron_id 1 ; splice_site "GT"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local intron 17082 26267 . + . intron_id 1
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice3 26266 26267 . + . intron_id 0 ; splice_site "AG"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local cds 26268 26324 . + .
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local exon 26268 26324 . + . insertions 0 ; deletions 0
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice5 26325 26326 . + . intron_id 2 ; splice_site "GT"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local intron 26325 27104 . + . intron_id 2
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice3 27103 27104 . + . intron_id 1 ; splice_site "AG"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local cds 27105 27249 . + .
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local exon 27105 27249 . + . insertions 0 ; deletions 0
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice5 27250 27251 . + . intron_id 3 ; splice_site "GT"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local intron 27250 28051 . + . intron_id 3
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice3 28050 28051 . + . intron_id 2 ; splice_site "AG"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local cds 28052 28126 . + .
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local exon 28052 28126 . + . insertions 0 ; deletions 0
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice5 28127 28128 . + . intron_id 4 ; splice_site "GT"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local intron 28127 35516 . + . intron_id 4
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice3 35515 35516 . + . intron_id 3 ; splice_site "TG"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local cds 35517 35591 . + .
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local exon 35517 35591 . + . insertions 0 ; deletions 0
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice5 35592 35593 . + . intron_id 5 ; splice_site "GT"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local intron 35592 46241 . + . intron_id 5
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice3 46240 46241 . + . intron_id 4 ; splice_site "AG"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local cds 46242 46261 . + .
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local exon 46242 46261 . + . insertions 0 ; deletions 0
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice5 46262 46263 . + . intron_id 6 ; splice_site "GT"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local intron 46262 47299 . + . intron_id 6
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice3 47298 47299 . + . intron_id 5 ; splice_site "AG"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local cds 47300 47391 . + .
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local exon 47300 47391 . + . insertions 0 ; deletions 0
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice5 47392 47393 . + . intron_id 7 ; splice_site "GT"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local intron 47392 50002 . + . intron_id 7
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice3 50001 50002 . + . intron_id 6 ; splice_site "AG"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local cds 50003 50177 . + .
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local exon 50003 50177 . + . insertions 0 ; deletions 0
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice5 50178 50179 . + . intron_id 8 ; splice_site "GT"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local intron 50178 61391 . + . intron_id 8
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice3 61390 61391 . + . intron_id 7 ; splice_site "AG"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local cds 61392 61528 . + .
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local exon 61392 61528 . + . insertions 0 ; deletions 0
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice5 61529 61530 . + . intron_id 9 ; splice_site "GT"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local intron 61529 64570 . + . intron_id 9
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice3 64569 64570 . + . intron_id 8 ; splice_site "AG"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local cds 64571 64666 . + .
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local exon 64571 64666 . + . insertions 0 ; deletions 0
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice5 64667 64668 . + . intron_id 10 ; splice_site "GT"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local intron 64667 65012 . + . intron_id 10
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice3 65011 65012 . + . intron_id 9 ; splice_site "AG"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local cds 65013 65105 . + .
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local exon 65013 65105 . + . insertions 0 ; deletions 0
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice5 65106 65107 . + . intron_id 11 ; splice_site "GT"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local intron 65106 66794 . + . intron_id 11
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice3 66793 66794 . + . intron_id 10 ; splice_site "AG"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local cds 66795 66866 . + .
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local exon 66795 66866 . + . insertions 0 ; deletions 0
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice5 66867 66868 . + . intron_id 12 ; splice_site "GT"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local intron 66867 67056 . + . intron_id 12
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice3 67055 67056 . + . intron_id 11 ; splice_site "AG"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local cds 67057 67154 . + .
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local exon 67057 67154 . + . insertions 0 ; deletions 0
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice5 67155 67156 . + . intron_id 13 ; splice_site "GT"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local intron 67155 67969 . + . intron_id 13
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local splice3 67968 67969 . + . intron_id 12 ; splice_site "AG"
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local cds 67970 68096 . + .
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local exon 67970 68096 . + . insertions 0 ; deletions 0
KV389887.1:subseq(389251,100209) exonerate:protein2genome:local similarity 17012 68096 2188 + . alignment_id 1 ; Query SPP00000377_2.0 ; Align 17012 14 69 ; Align 26270 38 54 ; Align 27107 57 141 ; Align 28053 105 72 ; Align 35518 130 72 ; Align 46243 155 18 ; Align 47302 162 90 ; Align 50003 192 174 ; Align 61394 251 135 ; Align 64571 296 96 ; Align 65013 328 93 ; Align 66795 359 72 ; Align 67057 383 96 ; Align 67971 416 126
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis