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(1226000,3000)
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 70.29 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 MEPLAAYPLKCSGPRAKVFAVLLSIVLCTVTL                  
                          + PL C  P     +  +     T TL                  
                     SSRRTSAPLWCKWPAPSSSSPSIPTRRSTFTL                  
subseq(1226000,  511 atcaatgccttatcgcttttcaacacatatat                  
                     gcggcccctggagccccccccgtccggcctct                  
                     ctggagggggcggctgacctctcatcacatag                  


SPP00000011_1.0   33                           LLQLKFLKPKINSFYAFEVKDAK 
                                                + L  L   + S + +       
                                F:S[agc]       SVCLWDLAVGMASVFTYSAVQ-N 
subseq(1226000,  607 AGGTCCTTC  Intron 1   CAGCtgtctgcgggagtgtataggc a 
                       <2-----[609  : 1785]-2> ctgtgatctgtccttcagcta a 
                                               cgcagctttcgacccctctga t 


SPP00000011_1.0   57 GRTVSLEKYKGKVSLVVNVASDCQLTDRNYLGLKELHKEFGPSHFSVLA 
                     G+TV L+KY G  +L+VNVAS C L   N   L E+ + +G   F+VLA 
                     GKTVVLQKYSGYATLIVNVASRCSLASTNIEMLNEVQQAYGSRRFTVLA 
subseq(1226000, 1853 gaaggtcattgtgacagaggtctacgtaaagacaggccgtgtcatagcg 
                     gactttaaacgacctttatccgggtcccatattaataacagcggtcttc 
                     cgatggagctatggtcgcgggacctaccccgggcggaggtcccgcctcg 


SPP00000011_1.0  106 FPCNQFGESEPRPSKEVESFARKNYGVTFPIFHKIKILGSEGEPAFRFL 
                     FPC QF   EP  + E+  +   + G+ FP+F ++ + GS  +P F++L 
                     FPCAQFANQEPLNNTEIAQWC-EDLGLLFPVFDRVNVKGSSADPLFQML 
subseq(1226000, 2000 tctgctgacgccaaagagctt ggcgcctcgtgcgagagttggcctcac 
                     tcgcatcaaactaacatcagg aatgtttcttagtatagcccacttatt 
                     tgcggtgtaggcctcatgggc gctggcttcttgccggtcaccggtgga 


SPP00000011_1.0  155 VDSSKKEPRWNFWKYLVNPEGQVVKFWKPEEPIEVIRPDIAALV      
                       + +  P WN+ KYL +  G   +  +P   ++ +R  I  ++      
                     -RAQQGAPLWNYTKYLCDRSGVPRRKLEPGCSMDALRQSIECVL      
subseq(1226000, 2144  cgccggcctataatctgcaggcccacgcgttaggccctagtgt      
                      gcaagcctgaacaatgagggtcggatacggctactgactagtt      
                      ggggatcggcccgcgcccctggctgggtcccgtggggccgttg      


SPP00000011_1.0  199                           QVIIKKKEDL              
                                                 ++K++E+               
                                R:Y[tat]       LSVVKEEEEA              
subseq(1226000, 2273 TAGTGAGTG  Intron 2   GAGTctggaggggg              
                       <2-----[2275 : 2308]-2> tcttaaaaac              
                                               cagggggggg              


//
Gene 1
Gene 511 2339 
  Exon 511 608 phase 0
  Exon 1786 2274 phase 2
  Exon 2309 2339 phase 2
//