Command line: [exonerate -m p2g --showtargetgff -q ./SPP00000309_2.0.fa -t ./SPP00000309_2.0/fastasubseq/KV389748.1_fastasubseq.fa]
Hostname: [ws101072u]
C4 Alignment:
------------
Query: SPP00000309_2.0 # Protein # Iodothyronine deiodinase 1 (DIO1) # Marmoset
Target: KV389748.1:subseq(962971,100341) Cebus capucinus imitator isolate Cc_AM_T3 unplaced genomic scaffold Scaffold322, whole genome shotgun sequence
Model: protein2genome:local
Raw score: 1302
Query range: 0 -> 249
Target range: 49999 -> 68429
1 : MetGlyLeuProGlyProGlyLeuTrpLeuLysArgLeuTrpValLeuLeuGluValAla : 20
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
MetGlyLeuProGlyProGlyLeuTrpLeuLysArgLeuTrpValLeuLeuGluValAla
50000 : ATGGGGCTGCCCGGGCCAGGGCTGTGGCTGAAGAGGCTCTGGGTGCTCTTGGAGGTGGCT : 50057
21 : ValHisValAlaValGlyLysValLeuLeuThrLeuPheProAspArgValLysLysAsn : 40
|||||||||||||||||||||:!!||||||||||||||||||||||||||||||||||||
ValHisValAlaValGlyLysLeuLeuLeuThrLeuPheProAspArgValLysLysAsn
50058 : GTGCATGTGGCTGTGGGCAAACTGCTTCTGACATTGTTTCCAGACAGAGTCAAGAAGAAC : 50117
41 : IleLeuAlaMetGlyAspLysThrGlyMetThrArgAsnProAsnPheSerHisAspAsn : 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
IleLeuAlaMetGlyAspLysThrGlyMetThrArgAsnProAsnPheSerHisAspAsn
50118 : ATACTAGCCATGGGCGACAAGACGGGTATGACCAGGAACCCAAACTTCAGCCACGACAAC : 50177
61 : TrpIleProThrPhePheSerThrGlnTyrPheTrpPheValLeuLysValArgTrpGln : 80
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
TrpIleProThrPhePheSerThrGlnTyrPheTrpPheValLeuLysValArgTrpGln
50178 : TGGATCCCGACCTTTTTCAGCACCCAGTATTTCTGGTTCGTCCTGAAGGTCCGTTGGCAG : 50237
81 : ArgLeuGluAspThrThrGluLeuGlyGlyLeuAlaProAsnCysProValValHisLeu : 100
|||||||||||||||.!!||||||||||||||||||||||||||||||||||||||||||
ArgLeuGluAspThrAlaGluLeuGlyGlyLeuAlaProAsnCysProValValHisLeu
50238 : CGACTAGAGGACACGGCTGAGCTAGGGGGTCTGGCCCCAAACTGCCCAGTGGTCCACCTC : 50297
101 : SerGlyGlnArgCysAsnIleTrpAspPheMetGln{G} >>>> Target Intron : 113
||||||||||||||||||||||||||||||||||||{|} 10101 bp
SerGlyGlnArgCysAsnIleTrpAspPheMetGln{G}++
50298 : TCAGGACAGAGGTGCAACATTTGGGACTTTATGCAA{G}gt................... : 50339
114 : 1 >>>> {ly}AsnArgProLeuValLeuAsnPheGlySerCysThrUnkProSerPhe : 129
{||}|||||||||||||||||||||||||||||||||||| |||||||||
++{ly}AsnArgProLeuValLeuAsnPheGlySerCysThr***ProSerPhe
50340 : ......ag{GA}AACAGGCCCCTGGTGCTGAATTTTGGAAGTTGTACCTGACCTTCATTT : 60485
130 : MetPheLysPheAspGlnPheLysArgLeuThrGluAspPheSerSerValAlaAspPhe : 149
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
MetPheLysPheAspGlnPheLysArgLeuThrGluAspPheSerSerValAlaAspPhe
60486 : ATGTTCAAATTTGACCAATTCAAGAGACTTACTGAAGACTTTAGTTCTGTAGCAGATTTT : 60545
150 : LeuIleIleTyrIleGluGluAlaHisAlaSer{A} >>>> Target Intron 2 > : 161
|||||||||||||||||||||||||||||||||{|} 4570 bp
LeuIleIleTyrIleGluGluAlaHisAlaSer{A}++
60546 : CTCATCATTTACATTGAAGAAGCACATGCATCA{G}gt...................... : 60584
162 : >>> {sp}GlyTrpAlaPheLysAsnAsnValAspIleArgAsnHisGlnAsnLeuGln : 178
{||}|||||||||||||||||||||||||||||||||||||||||||||||||||
++{sp}GlyTrpAlaPheLysAsnAsnValAspIleArgAsnHisGlnAsnLeuGln
60585 : ...ag{AT}GGCTGGGCTTTTAAGAACAACGTGGACATCAGGAATCACCAGAACCTTCAG : 65202
179 : AspArgLeuGlnAlaAlaHisLeuLeuLeuAlaArgSerProGlnCysProValValVal : 198
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
AspArgLeuGlnAlaAlaHisLeuLeuLeuAlaArgSerProGlnCysProValValVal
65203 : GACCGCCTGCAGGCAGCCCATCTGCTGCTGGCCAGGAGCCCCCAGTGCCCTGTGGTGGTG : 65262
199 : AspThrMetGlnAsnGlnSerSerGluLeuTyrAlaAlaLeuProGluArgLeuTyrIle : 218
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
AspThrMetGlnAsnGlnSerSerGluLeuTyrAlaAlaLeuProGluArgLeuTyrIle
65263 : GACACGATGCAGAACCAGAGCAGTGAGCTCTACGCAGCACTGCCGGAAAGGCTCTACATA : 65322
219 : IleGlnGluGlyArgIleLeuTyrLys >>>> Target Intron 3 >>>> GlyL : 229
||||||||||||||||||||||||||| 3012 bp ||||
IleGlnGluGlyArgIleLeuTyrLys++ ++GlyL
65323 : ATCCAGGAGGGCAGGATCCTCTACAAGgt.........................agGGTA : 68367
230 : ysSerGlyProTrpAsnTyrAsnProGluGluValArgAspValLeuGluLysLeuHisS : 249
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ysSerGlyProTrpAsnTyrAsnProGluGluValArgAspValLeuGluLysLeuHisS
68368 : AATCCGGCCCTTGGAACTACAATCCAGAGGAAGTTCGTGATGTTCTGGAAAAACTCCATA : 68427
250 : er : 249
||
er
68428 : GT : 68429
vulgar: SPP00000309_2.0 0 249 . KV389748.1:subseq(962971,100341) 49999 68429 + 1302 M 112 336 S 0 1 5 0 2 I 0 10097 3 0 2 S 1 2 M 47 141 S 0 1 5 0 2 I 0 4566 3 0 2 S 1 2 M 66 198 5 0 2 I 0 3008 3 0 2 M 22 66
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2016-11-17
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
KV389748.1:subseq(962971,100341) exonerate:protein2genome:local gene 50000 68429 1302 + . gene_id 1 ; sequence SPP00000309_2.0 ; gene_orientation +
KV389748.1:subseq(962971,100341) exonerate:protein2genome:local cds 50000 50336 . + .
KV389748.1:subseq(962971,100341) exonerate:protein2genome:local exon 50000 50336 . + . insertions 0 ; deletions 0
KV389748.1:subseq(962971,100341) exonerate:protein2genome:local splice5 50337 50338 . + . intron_id 1 ; splice_site "GT"
KV389748.1:subseq(962971,100341) exonerate:protein2genome:local intron 50337 60437 . + . intron_id 1
KV389748.1:subseq(962971,100341) exonerate:protein2genome:local splice3 60436 60437 . + . intron_id 0 ; splice_site "AG"
KV389748.1:subseq(962971,100341) exonerate:protein2genome:local cds 60438 60581 . + .
KV389748.1:subseq(962971,100341) exonerate:protein2genome:local exon 60438 60581 . + . insertions 0 ; deletions 0
KV389748.1:subseq(962971,100341) exonerate:protein2genome:local splice5 60582 60583 . + . intron_id 2 ; splice_site "GT"
KV389748.1:subseq(962971,100341) exonerate:protein2genome:local intron 60582 65151 . + . intron_id 2
KV389748.1:subseq(962971,100341) exonerate:protein2genome:local splice3 65150 65151 . + . intron_id 1 ; splice_site "AG"
KV389748.1:subseq(962971,100341) exonerate:protein2genome:local cds 65152 65351 . + .
KV389748.1:subseq(962971,100341) exonerate:protein2genome:local exon 65152 65351 . + . insertions 0 ; deletions 0
KV389748.1:subseq(962971,100341) exonerate:protein2genome:local splice5 65352 65353 . + . intron_id 3 ; splice_site "GT"
KV389748.1:subseq(962971,100341) exonerate:protein2genome:local intron 65352 68363 . + . intron_id 3
KV389748.1:subseq(962971,100341) exonerate:protein2genome:local splice3 68362 68363 . + . intron_id 2 ; splice_site "AG"
KV389748.1:subseq(962971,100341) exonerate:protein2genome:local cds 68364 68429 . + .
KV389748.1:subseq(962971,100341) exonerate:protein2genome:local exon 68364 68429 . + . insertions 0 ; deletions 0
KV389748.1:subseq(962971,100341) exonerate:protein2genome:local similarity 50000 68429 1302 + . alignment_id 1 ; Query SPP00000309_2.0 ; Align 50000 1 336 ; Align 60440 114 141 ; Align 65154 162 198 ; Align 68364 228 66
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis