Command line: [exonerate -m p2g --showtargetgff -q ../Sel.human/SELM.fa -t gi|397458552|gb|JH736949.1|subseq.fa]
Hostname: [ws101062]
C4 Alignment:
------------
Query: SPP00000077_2.0 # Protein # Selenoprotein M (SelM) # Human (Homo sapiens)
Target: gi|397458552|gb|JH736949.1|:subseq(85500,100000) Alligator mississippiensis unplaced genomic scaffold scaffold-9694, whole genome shotgun sequence:[revcomp]
Model: protein2genome:local
Raw score: 359
Query range: 41 -> 136
Target range: 51154 -> 47918
42 : ValGluThrCysGlyGlyUnkGlnLeuAsnArgLeuLysGlu >>>> Target Intr : 56
:!!:!!|||||||||||| !:!|||||||||:!!|||||| 404 bp
LeuGlnThrCysGlyGly***ArgLeuAsnArgMetLysGlu++
51154 : CTTCAGACTTGCGGAGGATGACGGCTGAACCGCATGAAAGAGgt................ : 51110
57 : on 1 >>>> ValLysAlaPheValThrGlnAspIleProPhe{Ty} >>>> Targe : 67
||||||||||||||||||:!!|||||||||.!.{||}
++ValLysAlaPheValThrGluAspIleProLeu{Ty}++
51109 : .........agGTGAAGGCCTTTGTCACCGAGGACATCCCTCTG{TA}gt.......... : 50671
68 : t Intron 2 >>>> {r}HisAsnLeuValMetLysHisLeuProGlyAlaAspProG : 81
516 bp {|}||||||||||||||||||||||||||||||||||||||||
++{r}HisAsnLeuValMetLysHisLeuProGlyAlaAspProG
50670 : ...............ag{C}CACAACCTGGTGATGAAGCATCTCCCTGGAGCCGACCCTG : 50117
82 : luLeuValLeuLeuGlyArgArgTyrGluGluLeuGlu >>>> Target Intron 3 : 94
||||||||||||||..!! !|||||||||||||||||| 2031 bp
luLeuValLeuLeuAsnIleArgTyrGluGluLeuGlu++
50116 : AACTGGTGCTCCTCAACATCAGATATGAGGAACTAGAGgt.................... : 50076
95 : >>>> ArgIleProLeuSerGluMetThrArgGluGluIleAsnAlaLeuValGlnGl : 111
|||||||||||||||!!:||||||||||||||||||||| !:!!||||||||
++ArgIleProLeuSerAspMetThrArgGluGluIleAsnGlnMetValGlnGl
50075 : .....agAGAATTCCCCTGAGTGACATGACCCGGGAGGAGATCAACCAGATGGTCCAGGA : 47996
112 : uLeuGlyPheTyrArgLysAlaAlaProAspAlaGlnValProProGluTyrValTrpAl : 131
|||||||||||||||||||! !:!!! !||||||! !|||||| !|||!:! ! ||
uLeuGlyPheTyrArgLysGluSerGlnAspAlaProValProGluGluPheGlnLeuAl
47995 : GCTGGGTTTCTATCGCAAGGAGTCACAAGATGCCCCAGTGCCTGAGGAATTCCAGCTTGC : 47936
132 : aProAlaLysProPro : 136
||||||||||||||||
aProAlaLysProPro
47935 : CCCTGCCAAGCCCCCG : 47919
vulgar: SPP00000077_2.0 41 136 . gi|397458552|gb|JH736949.1|:subseq(85500,100000) 51154 47918 - 359 M 14 42 5 0 2 I 0 400 3 0 2 M 11 33 S 0 2 5 0 2 I 0 512 3 0 2 S 1 1 M 26 78 5 0 2 I 0 2027 3 0 2 M 43 129
# --- 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|397458552|gb|JH736949.1|:subseq(85500,100000) exonerate:protein2genome:local gene 47919 51154 359 - . gene_id 1 ; sequence SPP00000077_2.0 ; gene_orientation +
gi|397458552|gb|JH736949.1|:subseq(85500,100000) exonerate:protein2genome:local cds 51113 51154 . - .
gi|397458552|gb|JH736949.1|:subseq(85500,100000) exonerate:protein2genome:local exon 51113 51154 . - . insertions 0 ; deletions 0
gi|397458552|gb|JH736949.1|:subseq(85500,100000) exonerate:protein2genome:local splice5 51111 51112 . - . intron_id 1 ; splice_site "GT"
gi|397458552|gb|JH736949.1|:subseq(85500,100000) exonerate:protein2genome:local intron 50709 51112 . - . intron_id 1
gi|397458552|gb|JH736949.1|:subseq(85500,100000) exonerate:protein2genome:local splice3 50709 50710 . - . intron_id 0 ; splice_site "AG"
gi|397458552|gb|JH736949.1|:subseq(85500,100000) exonerate:protein2genome:local cds 50674 50708 . - .
gi|397458552|gb|JH736949.1|:subseq(85500,100000) exonerate:protein2genome:local exon 50674 50708 . - . insertions 0 ; deletions 0
gi|397458552|gb|JH736949.1|:subseq(85500,100000) exonerate:protein2genome:local splice5 50672 50673 . - . intron_id 2 ; splice_site "GT"
gi|397458552|gb|JH736949.1|:subseq(85500,100000) exonerate:protein2genome:local intron 50158 50673 . - . intron_id 2
gi|397458552|gb|JH736949.1|:subseq(85500,100000) exonerate:protein2genome:local splice3 50158 50159 . - . intron_id 1 ; splice_site "AG"
gi|397458552|gb|JH736949.1|:subseq(85500,100000) exonerate:protein2genome:local cds 50079 50157 . - .
gi|397458552|gb|JH736949.1|:subseq(85500,100000) exonerate:protein2genome:local exon 50079 50157 . - . insertions 0 ; deletions 0
gi|397458552|gb|JH736949.1|:subseq(85500,100000) exonerate:protein2genome:local splice5 50077 50078 . - . intron_id 3 ; splice_site "GT"
gi|397458552|gb|JH736949.1|:subseq(85500,100000) exonerate:protein2genome:local intron 48048 50078 . - . intron_id 3
gi|397458552|gb|JH736949.1|:subseq(85500,100000) exonerate:protein2genome:local splice3 48048 48049 . - . intron_id 2 ; splice_site "AG"
gi|397458552|gb|JH736949.1|:subseq(85500,100000) exonerate:protein2genome:local cds 47919 48047 . - .
gi|397458552|gb|JH736949.1|:subseq(85500,100000) exonerate:protein2genome:local exon 47919 48047 . - . insertions 0 ; deletions 0
gi|397458552|gb|JH736949.1|:subseq(85500,100000) exonerate:protein2genome:local similarity 47919 51154 359 - . alignment_id 1 ; Query SPP00000077_2.0 ; Align 51155 42 42 ; Align 50709 56 33 ; Align 50157 68 78 ; Align 48048 94 129
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis