Command line: [exonerate -m p2g --showtargetgff -q Sel.human/SPS1.fa -t gi|397458686|gb|JH736815.1|subseq.fa -E]
Hostname: [ws101064]
C4 Alignment:
------------
Query: SPP00000060_2.0 # Protein # Selenophosphate synthetase 1 (SPS1) # Human (Homo sapiens)
Target: gi|397458686|gb|JH736815.1|:subseq(0,98669) Alligator mississippiensis unplaced genomic scaffold scaffold-9464, whole genome shotgun sequence:[revcomp]
Model: protein2genome:local
Raw score: 1635
Query range: 0 -> 321
Target range: 48849 -> 21200
1 : MetSerThrArgGluSerPheAsnProGluSerTyrGluLeuAspLysSerPheArgLeu : 20
||||||..!|||||||||||||||||||||||||||||||||||||||||||||||||||
MetSerValArgGluSerPheAsnProGluSerTyrGluLeuAspLysSerPheArgLeu
48849 : ATGTCTGTTCGGGAGTCCTTTAACCCAGAGAGCTATGAACTGGACAAGAGCTTCCGCCTG : 48792
21 : ThrArgPheThrGluLeuLysGlyThrGlyCysLysValProGlnAspValLeuGlnLys : 40
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ThrArgPheThrGluLeuLysGlyThrGlyCysLysValProGlnAspValLeuGlnLys
48791 : ACCCGATTCACTGAACTGAAAGGCACAGGCTGCAAAGTGCCTCAGGATGTTTTACAGAAA : 48732
41 : LeuLeuGluSerLeuGlnGluAsnHisPheGlnGluAspGluGlnPheLeuGlyAlaVal : 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LeuLeuGluSerLeuGlnGluAsnHisPheGlnGluAspGluGlnPheLeuGlyAlaVal
48731 : CTACTTGAATCCTTACAAGAAAACCATTTCCAAGAAGATGAACAGTTTCTTGGAGCTGTT : 48672
61 : MetProArgLeu{G} >>>> Target Intron 1 >>>> {ly}IleGlyMetAsp : 69
||||||||||||{|} 2508 bp {||}||||||||||||
MetProArgLeu{G}++ ++{ly}IleGlyMetAsp
48671 : ATGCCCCGGTTG{G}gt.........................ag{GA}ATTGGGATGGAC : 46137
70 : ThrCysValIleProLeuArgHisGlyGlyLeuSerLeuValGlnThrThrAspTyrIle : 89
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ThrCysValIleProLeuArgHisGlyGlyLeuSerLeuValGlnThrThrAspTyrIle
46136 : ACATGCGTTATTCCTTTAAGACATGGAGGTCTGTCTTTGGTCCAGACAACAGATTACATT : 46077
90 : TyrProIleValAspAspProTyrMetMet >>>> Target Intron 2 >>>> G : 100
|||||||||||||||||||||||||||||| 8456 bp |
TyrProIleValAspAspProTyrMetMet++ ++G
46076 : TATCCAATTGTGGATGACCCATACATGATGgt.........................agG : 37588
101 : lyArgIleAlaCysAlaAsnValLeuSerAspLeuTyrAlaMetGlyValThrGluCysA : 120
||||| !!||||||||||||||||||||||||||||||||||||||||||||||||||||
lyArgUnkAlaCysAlaAsnValLeuSerAspLeuTyrAlaMetGlyValThrGluCysA
37587 : GACGTNTAGCCTGTGCCAATGTCCTAAGTGACCTTTATGCCATGGGGGTCACAGAGTGCG : 37528
121 : spAsnMetLeuMetLeuLeuGlyValSerAsnLysMetThrAspArg >>>> Target : 136
|||||||||||||||||||||||:!!||||||||||||||||||||| 9
spAsnMetLeuMetLeuLeuGlyIleSerAsnLysMetThrAspArg++
37527 : ACAACATGTTGATGCTCCTTGGAATCAGTAATAAAATGACGGACAGGgt........... : 37478
137 : Intron 3 >>>> GluArgAspLysValMetProLeuIleIleGlnGlyPheLysAs : 150
35 bp ||||||||||||||||||||||||||||||||||||||||||||
++GluArgAspLysValMetProLeuIleIleGlnGlyPheLysAs
37477 : ..............agGAAAGGGACAAAGTGATGCCTCTAATTATCCAGGGCTTCAAAGA : 36503
151 : pAlaAlaGluGluAlaGlyThrSerValThrGlyGlyGlnThrValLeuAsnProTrpIl : 170
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
pAlaAlaGluGluAlaGlyThrSerValThrGlyGlyGlnThrValLeuAsnProTrpIl
36502 : TGCAGCAGAAGAGGCAGGGACTTCTGTGACGGGTGGCCAAACGGTGTTAAATCCTTGGAT : 36443
171 : eValLeuGlyGlyValAlaThrThrValCysGlnProAsnGluPheIle{Me} >>>> : 187
|||||||||||||||||||||||||||||||||||||||||||||||||{||}
eValLeuGlyGlyValAlaThrThrValCysGlnProAsnGluPheIle{Me}++
36442 : TGTTCTTGGAGGAGTGGCCACAACAGTCTGTCAGCCTAATGAATTCATA{AT}gt..... : 36388
188 : Target Intron 4 >>>> {t}ProAspAsnAlaValProGlyAspValLeuValLe : 199
817 bp {|}|||||||||||||||||||||||||||||||||||
++{t}ProAspAsnAlaValProGlyAspValLeuValLe
36387 : ....................ag{G}CCAGACAATGCAGTGCCAGGAGATGTACTTGTATT : 35539
200 : uThrLysProLeuGlyThrGlnValAlaValAlaValHisGlnTrpLeuAspIle >>> : 218
|||||||||||||||||||||||||||||||||||||||||||||||||||||||
uThrLysProLeuGlyThrGlnValAlaValAlaValHisGlnTrpLeuAspIle++
35538 : AACTAAACCCTTGGGAACACAAGTGGCTGTAGCTGTCCACCAGTGGCTAGATATTgt... : 35480
219 : > Target Intron 5 >>>> ProGluLysTrpAsnLysIleLysLeuValValThr : 229
3823 bp ||||||||||||||||||||||||||||||||||||
++ProGluLysTrpAsnLysIleLysLeuValValThr
35479 : ......................agCCAGAAAAATGGAATAAAATCAAACTGGTGGTAACG : 31626
230 : GlnGluAspValGluLeuAlaTyrGlnGluAlaMetMetAsnMetAlaArgLeuAsnArg : 249
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
GlnGluAspValGluLeuAlaTyrGlnGluAlaMetMetAsnMetAlaArgLeuAsnArg
31625 : CAAGAAGATGTAGAGCTAGCATACCAGGAGGCAATGATGAATATGGCAAGGCTCAACAGA : 31566
250 : Thr{G} >>>> Target Intron 6 >>>> {ly}GlyLeuLeuIleCysLeuPro : 258
|||{|} 10147 bp {||}|||||||||||||||||||||
Thr{G}++ ++{ly}GlyLeuLeuIleCysLeuPro
31565 : ACA{G}gt.........................ag{GA}GGCCTCCTCATCTGTTTGCCA : 21392
259 : ArgGluGlnAlaAlaArgPheCysAlaGluIleLysSerProLysTyrGlyGluGlyHis : 278
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ArgGluGlnAlaAlaArgPheCysAlaGluIleLysSerProLysTyrGlyGluGlyHis
21391 : CGTGAACAGGCTGCACGTTTCTGTGCTGAGATCAAATCTCCCAAGTACGGCGAGGGTCAC : 21332
279 : GlnAlaTrpIleIleGlyIleValGluLysGlyAsnArgThrAlaArgIleIleAspLys : 298
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
GlnAlaTrpIleIleGlyIleValGluLysGlyAsnArgThrAlaArgIleIleAspLys
21331 : CAAGCATGGATCATTGGGATCGTAGAGAAGGGGAACCGCACTGCCAGAATTATAGATAAA : 21272
299 : ProArgIleIleGluValAlaProGlnValAlaThrGlnAsnValAsnProThrProGly : 318
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
ProArgIleIleGluValAlaProGlnValAlaThrGlnAsnValAsnProThrProGly
21271 : CCACGAATCATTGAAGTTGCACCGCAAGTGGCCACTCAAAACGTGAACCCAACACCTGGT : 21212
319 : AlaThrSer : 321
|||||||||
AlaThrSer
21211 : GCCACTTCT : 21201
vulgar: SPP00000060_2.0 0 321 . gi|397458686|gb|JH736815.1|:subseq(0,98669) 48849 21200 - 1635 M 64 192 S 0 1 5 0 2 I 0 2504 3 0 2 S 1 2 M 34 102 5 0 2 I 0 8452 3 0 2 M 36 108 5 0 2 I 0 931 3 0 2 M 51 153 S 0 2 5 0 2 I 0 813 3 0 2 S 1 1 M 30 90 5 0 2 I 0 3819 3 0 2 M 33 99 S 0 1 5 0 2 I 0 10143 3 0 2 S 1 2 M 70 210
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-25
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local gene 21201 48849 1635 - . gene_id 1 ; sequence SPP00000060_2.0 ; gene_orientation +
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local cds 48657 48849 . - .
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local exon 48657 48849 . - . insertions 0 ; deletions 0
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local splice5 48655 48656 . - . intron_id 1 ; splice_site "GT"
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local intron 46149 48656 . - . intron_id 1
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local splice3 46149 46150 . - . intron_id 0 ; splice_site "AG"
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local cds 46045 46148 . - .
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local exon 46045 46148 . - . insertions 0 ; deletions 0
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local splice5 46043 46044 . - . intron_id 2 ; splice_site "GT"
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local intron 37589 46044 . - . intron_id 2
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local splice3 37589 37590 . - . intron_id 1 ; splice_site "AG"
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local cds 37481 37588 . - .
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local exon 37481 37588 . - . insertions 0 ; deletions 0
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local splice5 37479 37480 . - . intron_id 3 ; splice_site "GT"
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local intron 36546 37480 . - . intron_id 3
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local splice3 36546 36547 . - . intron_id 2 ; splice_site "AG"
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local cds 36391 36545 . - .
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local exon 36391 36545 . - . insertions 0 ; deletions 0
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local splice5 36389 36390 . - . intron_id 4 ; splice_site "GT"
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local intron 35574 36390 . - . intron_id 4
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local splice3 35574 35575 . - . intron_id 3 ; splice_site "AG"
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local cds 35483 35573 . - .
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local exon 35483 35573 . - . insertions 0 ; deletions 0
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local splice5 35481 35482 . - . intron_id 5 ; splice_site "GT"
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local intron 31660 35482 . - . intron_id 5
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local splice3 31660 31661 . - . intron_id 4 ; splice_site "AG"
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local cds 31560 31659 . - .
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local exon 31560 31659 . - . insertions 0 ; deletions 0
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local splice5 31558 31559 . - . intron_id 6 ; splice_site "GT"
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local intron 21413 31559 . - . intron_id 6
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local splice3 21413 21414 . - . intron_id 5 ; splice_site "AG"
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local cds 21201 21412 . - .
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local exon 21201 21412 . - . insertions 0 ; deletions 0
gi|397458686|gb|JH736815.1|:subseq(0,98669) exonerate:protein2genome:local similarity 21201 48849 1635 - . alignment_id 1 ; Query SPP00000060_2.0 ; Align 48850 1 192 ; Align 46147 66 102 ; Align 37589 100 108 ; Align 36546 136 153 ; Align 35573 188 90 ; Align 31660 218 99 ; Align 21411 252 210
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis