GPx7
genewise $Name: wise2-2-0 $ (unreleased release)
This program is freely distributed under a GPL. See source directory
Copyright (c) GRL limited: portions of the code are from separate copyright
Query protein: SPP00000010_1.0
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End global
Target Sequence subseq(510348,4215)
Strand: forward
Start/End (protein) global
Gene Paras: human.gf
Codon Table: codon.table
Subs error: 1e-05
Indel error: 1e-05
Model splice? model
Model codon bias? flat
Model intron bias? tied
Null model syn
Algorithm 623
genewise output
Score 18.25 bits over entire alignment
Scores as bits over a synchronous coding model
Warning: The bits scores is not probablistically correct for single seqs
See WWW help for more info
SPP00000010_1.0 1 MVAATVAAAWLLLWAAACAQQE--QDFYDFKAVNIRGKLVSLEKYRGSV
++ A + ++ E +YD+ + G V + Y+ V
ILQRNPANMFSFFKKITVSKGELRPSIYDYHVKKLDGTTVPMSTYKNKV
subseq(510348,4 2920 atcaacgaatattaaaagtaggtcctatgtcgaacggaagcatataaag
ttagaccattgttaatctcagatgcctaaaataatagcctctccaaaat
taaactccgtcccaaattgggagtccttcttggggtaatgagtacacgt
SPP00000010_1.0 48 SLVVNVASECGFTDQHYRALQQLQRDLGPHHFN
L+VN AS+CG+T +H L QL L +
LLIVNSASKCGLTRKHVDQLNQLHDRLNEQGLE
subseq(510348,4 3067 tcagatgtatgtacacggccacccgctagcgtg
ttttacccaggtcgaataataataagtaaagta
ggttcgtcgtcagagtgtgtcgactagcggaag
SPP00000010_1.0 81 VLAFPCNQFGQQEPDSNKEIESFARR
+LAFP +QF QE + +I SF +
ILAFPTSQFLNQEFPNTCDISSFNDK
subseq(510348,4 3166 GTTCGCC Intron 1 TAGatgtcaactcacgtcaatgatttaga
<0-----[3166 : 3403]-0>ttctccgattaaatcacgatcctaaa
tgccgtcgcacagcccgcctcattta
SPP00000010_1.0 107 TYSVSFPMFSKIAVTGTGAHPAFKYLAQTSGKE
+ + +F+ I V G H FK+L
N-KIKYNFFAPIEVNGENTHELFKFLKANCDSV
subseq(510348,4 3482 a aaatattgcaggaggaacgctatcagatgtg
a ataaattcctatagaacaattattacagact
c acatccccttactaacttggtatggccccga
SPP00000010_1.0 140 -PTWNFWKYLVAPDGKVVGAWDP
WNF K+LV G VV + P
-:E[gaa] NIGWNFGKFLVNRSGNVVSYFSP
subseq(510348,4 3578 GGTGCTTT Intron 2 TAGAAaagtatgattgaaagaggatttc
<1-----[3579 : 3870]-1> atggatgatttagggattgatcc
cccgctaatattacacaccttca
SPP00000010_1.0 162 TVSVEEVRPQITALVRKLILLKREDLX
E+ IT DL
RTYPLEIEKNIT------------DLL
subseq(510348,4 3942 aatccgagaaaa gtc
gcactataaatc att
aatctatggcat tag
//
Gene 1
Gene 2920 3986
Exon 2920 3165 phase 0
Exon 3404 3578 phase 0
Exon 3871 3986 phase 1
//
>subseq(510348,4215).[2920:3986].sp.tr
ILQRNPANMFSFFKKITVSKGELRPSIYDYHVKKLDGTTVPMSTYKNKVLLIVNSASKCG
LTRKHVDQLNQLHDRLNEQGLEILAFPTSQFLNQEFPNTCDISSFNDKNKIKYNFFAPIE
VNGENTHELFKFLKANCDSVENIGWNFGKFLVNRSGNVVSYFSPRTYPLEIEKNITDLL
//
>subseq(510348,4215).[2920:3986].sp
ATTTTACAAAGAAACCCTGCCAACATGTTTAGCTTCTTCAAAAAAATAACTGTTTCGAAG
GGGGAATTGCGTCCCTCCATTTATGACTATCATGTGAAGAAGCTGGATGGAACAACTGTG
CCAATGTCTACATACAAAAACAAGGTTTTGCTGATTGTTAACTCGGCTTCCAAGTGTGGC
TTAACGCGAAAGCATGTGGATCAGCTTAACCAGCTACACGATCGATTGAACGAGCAGGGA
TTAGAGATTTTGGCCTTCCCGACTAGCCAGTTCCTAAACCAAGAGTTCCCCAACACGTGC
GACATTTCCTCATTTAATGATAAAAACAAAATCAAATATAACTTCTTCGCCCCTATTGAA
GTCAATGGAGAAAACACTCATGAGCTGTTTAAATTTCTGAAGGCCAACTGCGACTCGGTA
GAAAACATCGGCTGGAACTTTGGAAAATTTTTAGTTAATAGAAGCGGAAACGTAGTCAGC
TATTTTTCCCCAAGAACATATCCCCTTGAAATTGAGAAGAACATAACTGATTTACTG
//
GPx8
genewise $Name: wise2-2-0 $ (unreleased release)
This program is freely distributed under a GPL. See source directory
Copyright (c) GRL limited: portions of the code are from separate copyright
Query protein: SPP00000011_1.0
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End global
Target Sequence subseq(2537000,5000)
Strand: forward
Start/End (protein) global
Gene Paras: human.gf
Codon Table: codon.table
Subs error: 1e-05
Indel error: 1e-05
Model splice? model
Model codon bias? flat
Model intron bias? tied
Null model syn
Algorithm 623
genewise output
Score 22.22 bits over entire alignment
Scores as bits over a synchronous coding model
Warning: The bits scores is not probablistically correct for single seqs
See WWW help for more info
SPP00000011_1.0 1 MEPLAAYPLKCSGPRAKVFAVLLSIVLCTVTLFLLQLKFLKPKINSFYA
+ L L A +F+ I + + L+P S+Y
FLALLFVLLILQRNHANMFSFFKKITV--------SKEELRP---SIYD
subseq(2537000, 1709 ttgcctgccatcaacgaatattaaaag taggtcc tatg
ttcttttttttagaacattgttaatct caaatgc ctaa
tagactagataaactccgtcccaaatt gggagtc cttc
SPP00000011_1.0 50 FEVKDAKGRTVSLEKYKGKVSLVVNVASDCQLTDRNYLGLKELHKEFGP
+ VK G TV + YK KV L+VN AS C LT ++ L +LH +
YHVKKLDGTTVPMSTYKNKVLLIVNSASKCGLTRKHVDQLNQLHDRLNE
subseq(2537000, 1823 tcgaacggaagcatataaagtcagatgtatgtacacggccacccgctag
aataatagcctctccaaaatttttacccaggtcgaataataataagtaa
ttggggtaatgagtacacgcggttcgtcgtcagagtgtgtcggctagcg
SPP00000011_1.0 99 SHFS VLAFPCNQFGESEPRPSKEVES
+ +LAFP +QF E + ++ S
QGLE ILAFPTSQFLNQEFPNTCDISS
subseq(2537000, 1970 cgtgGTTCGCC Intron 1 CAGatgtcaactcacgtcaatgatt
agta<0-----[1982 : 2210]-0>ttctccgattaaatcacgatcc
gaag tgccgtcgcacagcccgcctca
SPP00000011_1.0 125 FARKNYGVTFPIFHKIKILGSEGEPAFRFLVDSSKKE
F KN + + +F I++ G F+FL +
FNDKNK-IKYNFFAPIEVNGENTHELFKFLKANCDSV
subseq(2537000, 2277 tagaaa aatattgcaggaggaacgctatcagatgtg
taaaaa taaattcctatagaacaattattacagact
tttaca catccccttactaacttggtatggccccga
SPP00000011_1.0 162 -PRWNFWKYLVNPEGQVVKFWKP
WNF K+LVN G VV ++ P
-:E[gaa] NIGWNFGKFLVNRSGNVVSYFSP
subseq(2537000, 2385 GGTGCTTT Intron 2 TAGAAaagtatgattgaaagaggatttc
<1-----[2386 : 2678]-1> atggatgatttagggattgatcc
cccgctaatattacacaccttca
SPP00000011_1.0 184 EE-PIEVIRPDIAALVRQVIIKKKEDL
P+E I +I L+ + K K +L
RTYPLE-IEKNITDLLEK---KTKTEL
subseq(2537000, 2750 aatccg agaaaagtcga aaaagt
gcacta taaatcattaa acacat
aatcta tggcattagaa aaaaga
//
Gene 1
Gene 1709 2818
Exon 1709 1981 phase 0
Exon 2211 2385 phase 0
Exon 2679 2818 phase 1
//
>subseq(2537000,5000).[1709:2818].sp.tr
FLALLFVLLILQRNHANMFSFFKKITVSKEELRPSIYDYHVKKLDGTTVPMSTYKNKVLL
IVNSASKGLTRKHVDQLNQLHDRLNEQGLEILAFPTSQFLNQEFPNTCDISSFNDKNKI
KYNFFAPIEVNGENTHELFKFLKANCDSVENIGWNFGKFLVNRSGNVVSYFSPRTYPLEI
EKNITDLLEKKTKTEL
//
>subseq(2537000,5000).[1709:2818].sp
TTTTTAGCGCTACTCTTTGTACTGCTAATTTTACAAAGAAACCATGCCAACATGTTTAGC
TTCTTCAAAAAAATAACTGTTTCGAAGGAGGAATTGCGTCCCTCCATTTATGACTATCAT
GTGAAGAAGCTGGATGGAACAACTGTGCCAATGTCTACATACAAAAACAAGGTCTTGCTG
ATTGTTAACTCGGCTTCCAAGTGTGGCTTAACGCGAAAGCATGTGGATCAGCTTAACCAG
CTGCACGATCGATTGAACGAGCAGGGATTAGAGATTTTGGCCTTCCCGACTAGCCAGTTC
CTAAACCAAGAGTTCCCCAACACGTGCGACATTTCCTCATTTAATGATAAAAACAAAATC
AAATATAACTTCTTCGCCCCTATTGAAGTCAATGGAGAAAACACTCATGAGCTGTTTAAA
TTTCTGAAGGCCAACTGCGACTCGGTAGAAAACATCGGCTGGAACTTTGGAAAATTTTTA
GTTAATAGAAGCGGAAACGTAGTCAGCTATTTTTCCCCAAGAACATATCCCCTTGAAATT
GAGAAGAACATAACTGATTTACTGGAAAAAAAAACAAAAACAGAGTTA
//
