genewise wise2_1_22c (July 29 2000 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:       ,
Comp Matrix:         blosum62.bla
Gap open:            12
Gap extension:       2
Start/End            default
Target Sequence      genomic
Strand:              forward
Start/End (protein)  default
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 261.02 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

,                  1 MALWMRLLPLLVLLALWGPDPASAFVNQHLCGSHLVEALYLVCGERGFF 
                     MALWMRLLPLL LLALWGPDPA+AFVNQHLCGSHLVEALYLVCGERGFF 
                     MALWMRLLPLLALLALWGPDPAAAFVNQHLCGSHLVEALYLVCGERGFF 
genomic         1884 agctaccccccgccgctgcgcgggtgaccctgtccgggctcgtggcgtt 
                     tctgtgttcttcttctggcaccccttaaatggcattactattggaggtt 
                     gcgggccgcgggggccgatcacactgcacgccacggatccagcgaaccc 


,                 50 YTPKTRREAEDLQ                          GQVELGGGPG 
                     YTPKTRREAEDLQ                          GQVELGGGPG 
                     YTPKTRREAEDLQ          V:V[gtg]        GQVELGGGPG 
genomic         2031 tacaaccggggccGGTGAGCC  Intron 1   CAGTGgcggcgggcg 
                     accacggacaata <1-----[2071 : 3216]-1>  gatatgggcg 
                     cacgccggagcgg                          gggggcgctt 


,                 74 AGSLQPLALEGSLQKRGIVEQCCTSICSLYQLENYCN             
                     AGSLQPLALEGSLQKRGIVEQCCTSICSLYQLENYCN             
                     AGSLQPLALEGSLQKRGIVEQCCTSICSLYQLENYCN             
genomic         3249 ggaccctgcggtccacgaggcttaaattctccgatta             
                     cggtactctagctaaggttaaggcgtgctaataaaga             
                     accggcgcgggcgggtctgaactcccccccgggcccc             


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