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: SelTryp;
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End local
Target Sequence subseq(119362,6434)
Strand: forward
Start/End (protein) local
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 111.51 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
SelTryp; 8 ISFSLALLIAAFLAANAGSATNADNEATDYSSHRYKYLEMLKEADLKQM
I SLALL+ F A A SA + + Y YL ML E DL+Q+
IVVSLALLF-VFAACRANSAHEVQ-PTQEGNKDPYAYLGMLDEVDLQQI
subseq(119362,6 2469 aggtcgcct gtggtcgatgcggc cacggaagctgtcgacggggccca
tttctcttt ttccggcaccaata ccaagaaacacatgttaatataat
ctgaggttc gccgctatggtggg ctggacgcgcccctgctggcagga
SelTryp; 57 LHEK--GEA-FHHLRSKRELILAVLKLEKREEALR
LHEK G+ RSK EL+ AV K+E+RE+A
LHEKTHGQVQVSAFRSKEELVAAVRKIEEREDAEV
subseq(119362,6 2610 tcgaacgcgcgagtcaaggcggggcaaggcggggg
taaacagatatgctggaaattcctgataagaacat
ataggtaggggcccccgaggcgggtgtggcgcggc
SelTryp; 89 ARVTDT-----VQHEVRVEYCSG
A+ T + V H++ + YC+G
K:S[agc] AKKTLSGRPLSVVHKLEILYCTG
subseq(119362,6 2715 AGTTTCGA Intron 1 CAGGCgaaatagccctggcacgacttag
<1-----[2716 : 2967]-1> caactgggctcttaatattagcg
gggggtgtctgcgtggatatcca
SelTryp; 108 UGYRRHYEEVAESLLRSLPPELREQQKGKKPFIKFVGVVYSVGAFREFI
GY +++E++ + L R LP +++VG Y R +
XGYAKYFEDMKQQLQRVLP---------NAGDVQIVGGTYPTPPARALA
subseq(119362,6 3039 tgtgattggaacccccgcc aggggcagggatcaccgcgcg
ggacaataataaatagttc acgatattggcacccccgctc
aacggttatggggaacggc cgttcatgttctccacccgcc
SelTryp; 157 GNILSTGFLASIAISFFAPFLRGALPPHIAEWIEQHRGMVVGAGFMMNM
+ ST FLAS+ +++ L LPP +I Q RGM+VG GF++NM
AKVCSTAFLASLGMALAGGQL-AFLPPAALNFIVQQRGMLVGTGFLLNM
subseq(119362,6 3159 gagttagtcgtcgagcgggcc gtcccggcatagcccgacggagttcaa
catgcccttcctgtctcggat cttcccctatttaaggtttgcgtttat
gggcgactgccctgctcaagc gtgtcctgccttggtcggcctccggtg
SelTryp; 206 VASSLLQSGAFEVYLNGSLIYSKLETGAVPTAETLADHILRQII
+ SSL Q+GAFEV L+G LI+SKL+ GAVPT E + IL++ +
IGSSLTQTGAFEVTLDGELIFSKLQAGAVPTVEVMRRIILQKTL
subseq(119362,6 3303 agatcacaggtggatgggcattaccggggcagggaccaaccaac
tggctcacgctatctagatttcatacgctcctattggtttaact
ccctccgctccgtcgtcgtccggagtatagcggagctttgggat
//
Gene 1
Gene 2469 3434
Exon 2469 2715 phase 0
Exon 2968 3434 phase 1
//
>subseq(119362,6434).[2469:3434].sp
ATCGTTGTGTCACTGGCGCTTCTTTTCGTGTTCGCCGCGTGCCGTGCAAATTCGGCGCAT
GAGGTGCAGCCCACTCAGGAGGGAAACAAGGACCCGTACGCCTACCTCGGTATGCTCGAT
GAGGTGGACCTACAGCAGATATTACATGAAAAGACGCATGGACAGGTGCAGGTGAGCGCC
TTCCGCAGCAAGGAAGAGCTGGTCGCGGCGGTGCGTAAGATTGAGGAGCGCGAGGACGCG
GAGGTCAGCGCGAAGAAGACGTTGAGTGGGCGTCCCCTTTCGGTCGTGCATAAGCTGGAA
ATTCTATATTGCACCGGATGAGGATACGCGAAGTATTTTGAAGATATGAAGCAGCAGCTA
CAACGCGTGCTGCCCAACGCGGGTGATGTCCAAATTGTGGGTGGTACCTATCCCACCCCA
CCCGCCCGCGCGCTCGCCGCGAAGGTGTGCTCGACAGCCTTTCTGGCCTCCCTCGGTATG
GCCCTTGCCGGAGGACAGCTCGCGTTTCTGCCTCCCGCCGCTCTGAACTTCATTGTTCAG
CAGCGTGGCATGCTGGTCGGCACTGGCTTCTTGCTGAATATGATCGGCAGCTCTCTCACC
CAGACCGGTGCCTTCGAGGTTACCTTGGATGGCGAGCTTATCTTCTCGAAGCTACAGGCT
GGAGCTGTACCGACCGTGGAGGTAATGCGCCGTATTATTCTGCAGAAGACACTT
//