Command line: [exonerate -m p2g --showtargetgff -q ../Sel.human/GPX3.fa -t gi|397463514|gb|JH731987.1|subseq.fa]
Hostname: [ws101062]
C4 Alignment:
------------
Query: SPP00000021_2.0 # Protein # Glutathione peroxidase 3 (GPx3) # Human (Homo sapiens)
Target: gi|397463514|gb|JH731987.1|:subseq(150000,100000) Alligator mississippiensis unplaced genomic scaffold scaffold-1586, whole genome shotgun sequence
Model: protein2genome:local
Raw score: 842
Query range: 0 -> 218
Target range: 57517 -> 60569
1 : MetAlaArgLeuLeuGlnAlaSerCysLeuLeuSerLeuLeuLeuAlaGlyPheValSer : 20
|||!.! !!! !|||!!.||||||!! :!!!!! !!|||:!!|||||||||.!.:!!..!
MetGlyGlyGlnLeuHisAlaSerTrpIlePheProLeuValLeuAlaGlyLeuIleGln
57518 : ATGGGGGGCCAGCTGCATGCCTCCTGGATCTTCCCCTTGGTTTTGGCTGGCCTGATTCAG : 57575
21 : GlnSerArgGlyGlnGluLysSerLys >>>> Target Intron 1 >>>> MetA : 31
! !!:! !!||||||||||||..!||| 1706 bp :!!:
ProAsnTrpGlyGlnGluLysAspLys++ ++ValA
57576 : CCGAATTGGGGGCAGGAGAAAGACAAGgt.........................agGTGA : 59314
32 : spCysHisGlyGlyIleSerGlyThrIleTyrGluTyrGlyAlaLeuThrIleAspGlyG : 51
!!|||:!!.!!..!:!:.!!||||||:!!|||!!:|||||||||||||||||||||||||
snCysTyrSerAsnValGlyGlyThrValTyrAspTyrGlyAlaLeuThrIleAspGlyG
59315 : ACTGCTACAGCAATGTGGGTGGCACAGTCTATGACTACGGGGCCCTCACCATCGACGGGG : 59374
52 : luGluTyrIleProPheLysGlnTyrAlaGlyLysTyrValLeuPheValAsnValAlaS : 71
||||||||:!!|||||||||::!|||||||||||| :!!||||||||||||||||||!
luGluTyrValProPheLysArgTyrAlaGlyLysMetIleLeuPheValAsnValAlaT
59375 : AAGAGTACGTCCCCTTCAAGAGGTACGCGGGGAAGATGATCCTCTTCGTCAACGTGGCCA : 59434
72 : erTyrUnkGlyLeuThrGlyGlnTyrIle{G} >>>> Target Intron 2 >>>> : 81
!!||| ||||||||| !||||||:!!{|} 471 bp
hrTyr***GlyLeuThrMetGlnTyrVal{G}++ +
59435 : CGTACTGAGGGCTCACCATGCAGTACGTT{G}gt.........................a : 59934
82 : {lu}LeuAsnAlaLeuGlnGluGluLeuAlaProPheGlyLeuValIleLeuGlyPheP : 100
{||}|||||||||||||||...||||||!.!|||!:!||||||||||||||||||||||
+{lu}LeuAsnAlaLeuGlnSerGluLeuGlyProTyrGlyLeuValIleLeuGlyPheP
59935 : g{AA}CTGAATGCACTACAAAGCGAACTGGGGCCCTACGGACTCGTCATCCTGGGCTTCC : 59992
101 : roCysAsnGlnPheGlyLysGlnGluProGlyGluAsnSerGluIleLeuProThrLeu{ : 120
||! !|||||||||||||||||||||||||||:!!|||:!!||||||||||||.!!|||{
roSerAsnGlnPheGlyLysGlnGluProGlyGlnAsnAlaGluIleLeuProAlaLeu{
59993 : CCTCCAACCAGTTTGGGAAACAAGAACCCGGCCAGAACGCCGAGATCCTTCCTGCCCTG{ : 60052
121 : Ly} >>>> Target Intron 3 >>>> {s}TyrValArgProGlyGlyGlyPheV : 129
||} 138 bp {|}||||||||||||||||||||||||!
Ly}++ ++{s}TyrValArgProGlyGlyGlyPheA
60053 : AA}gt.........................ag{A}TACGTCCGCCCGGGGGGAGGCTTCG : 60217
130 : alProAsnPheGlnLeuPheGluLysGlyAspValAsnGlyGluLysGluGlnLysPheT : 149
.!||||||||||||||||||:!!||||||||||||||||||||||||||||||||| !!|
laProAsnPheGlnLeuPheGlnLysGlyAspValAsnGlyGluLysGluGlnLysValT
60218 : CCCCCAATTTCCAGCTCTTCCAGAAGGGTGACGTGAACGGGGAGAAGGAACAGAAGGTCT : 60277
150 : yrThrPheLeuLys >>>> Target Intron 4 >>>> AsnSerCysProProTh : 159
|||||||||||||| 83 bp |||||||||||||||..
yrThrPheLeuLys++ ++AsnSerCysProProVa
60278 : ACACCTTCCTCAAGgt.........................agAACTCCTGCCCTCCCGT : 60390
160 : rSerGluLeuLeuGlyThrSerAspArgLeuPheTrpGluProMetLysValHisAspIl : 179
! !||| !!!!||| ! !! ! !:!|||||||||||||||:!!|||:!!||||||||
lValGluAsnPheGlyAspProLysLysLeuPheTrpGluProLeuLysIleHisAspIl
60391 : GGTGGAAAACTTTGGAGACCCCAAGAAGCTTTTCTGGGAGCCCCTGAAGATCCACGACAT : 60450
180 : eArgTrpAsnPheGluLysPheLeuValGlyProAspGlyIleProIleMetArgTrpHi : 199
|!:!||||||||||||||||||||||||||||||||||||:!:|||:!:|||||||||:!
eLysTrpAsnPheGluLysPheLeuValGlyProAspGlyValProValMetArgTrpTy
60451 : CAAGTGGAACTTCGAGAAGTTCCTGGTGGGGCCGGACGGGGTGCCGGTGATGCGGTGGTA : 60510
200 : sHisArgThrThrValSerAsnValLysMetAspIleLeuSerTyrMetArgArgGln : 218
!||||||.!!!.!:!!:!!!..||||||! ||||||:!!..!||||||!:! !|||
rHisArgAlaAsnIleAlaThrValLysAsnAspIleMetGluTyrMetLysAlaGln
60511 : CCACCGCGCCAACATCGCCACGGTGAAGAACGACATCATGGAGTACATGAAGGCCCAG : 60569
vulgar: SPP00000021_2.0 0 218 . gi|397463514|gb|JH731987.1|:subseq(150000,100000) 57517 60569 + 842 M 29 87 5 0 2 I 0 1702 3 0 2 M 51 153 S 0 1 5 0 2 I 0 467 3 0 2 S 1 2 M 38 114 S 0 2 5 0 2 I 0 134 3 0 2 S 1 1 M 33 99 5 0 2 I 0 79 3 0 2 M 65 195
# --- 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|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local gene 57518 60569 842 + . gene_id 1 ; sequence SPP00000021_2.0 ; gene_orientation +
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local cds 57518 57604 . + .
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local exon 57518 57604 . + . insertions 0 ; deletions 0
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local splice5 57605 57606 . + . intron_id 1 ; splice_site "GT"
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local intron 57605 59310 . + . intron_id 1
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local splice3 59309 59310 . + . intron_id 0 ; splice_site "AG"
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local cds 59311 59464 . + .
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local exon 59311 59464 . + . insertions 0 ; deletions 0
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local splice5 59465 59466 . + . intron_id 2 ; splice_site "GT"
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local intron 59465 59935 . + . intron_id 2
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local splice3 59934 59935 . + . intron_id 1 ; splice_site "AG"
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local cds 59936 60053 . + .
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local exon 59936 60053 . + . insertions 0 ; deletions 0
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local splice5 60054 60055 . + . intron_id 3 ; splice_site "GT"
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local intron 60054 60191 . + . intron_id 3
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local splice3 60190 60191 . + . intron_id 2 ; splice_site "AG"
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local cds 60192 60291 . + .
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local exon 60192 60291 . + . insertions 0 ; deletions 0
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local splice5 60292 60293 . + . intron_id 4 ; splice_site "GT"
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local intron 60292 60374 . + . intron_id 4
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local splice3 60373 60374 . + . intron_id 3 ; splice_site "AG"
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local cds 60375 60569 . + .
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local exon 60375 60569 . + . insertions 0 ; deletions 0
gi|397463514|gb|JH731987.1|:subseq(150000,100000) exonerate:protein2genome:local similarity 57518 60569 842 + . alignment_id 1 ; Query SPP00000021_2.0 ; Align 57518 1 87 ; Align 59311 30 153 ; Align 59938 82 114 ; Align 60193 121 99 ; Align 60375 154 195
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis