The pairwise alignment has been generated with the "genewise" program of the Wise2 package. The output shows the protein sequence on the first line, followed by a line indicating the similarity level of the match, followed by 4 lines representing the DNA sequence; The DNA sequence descending in triplets, each triplet being a codon. The translation of each codon is shown above it.
Between the two protein sequences a line indicating the similarity of the match is printed. "+" indicates a conservative mismatch while "- "indicates a dramatic one. Mismatches are indicated by "***" in the left column in addition to "!" at the relevant position(s).
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: GNAI2_ORYLA
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End default
Target Sequence OLAB1742_2
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 874.35 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.
GNAI2_ORYLA 1 GCTVSQEDKAAADRSKMIDKNLREDGEKAAREVKLLLLGAGESGKSTIV
GCTVSQEDKAAADRSKMIDKNLREDGEKAAREVKLLLLGAGESGKSTIV
GCTVSQEDKAAADRSKMIDKNLREDGEKAAREVKLLLLGAGESGKSTIV
OLAB1742_2 4 gtagacggaggggataaagaaccggggaggaggaccccggggtgaaaag
ggctgaaaacccagcattaaatgaagaaccgatattttgcgacgagctt
cttgcgacacgccgtagccacgaatagggggagagcggtcgggggcctg
GNAI2_ORYLA 50 KQMKIIHEDGYSEDECKQYRAVVYSNTVQSIMAIIKAMTILHLDYERPE
KQMKIIHEDGYSEDECKQYRAVVYSNTVQSIMAIIKAMTILHLDYERPE
KQMKIIHEDGYSEDECKQYRAVVYSNTVQSIMAIIKAMTILHLDYERPE
OLAB1742_2 151 acaaaacgggttgggtactagggtaaagctaagaaagaaacccgtgccg
aatattaaagacaaagaaagcttagactacttcttactcttataaagca
ggggtttatttaatgtgacaattcccccgccgtccacgccgtcctactg
GNAI2_ORYLA 99 REEDAKRLFKMAAEAEERGDLPEELANIIKDLWADSGIQHCLTRAREYQ
REEDAKRLFKMAAEAEERGDLPEELANIIKDLWADSGIQHCLTRAREYQ
REEDAKRLFKMAAEAEERGDLPEELANIIKDLWADSGIQHCLTRAREYQ
OLAB1742_2 298 aggggacctaaggggggcggccggtgaaaagctggtgacctcacgcgtc
gaaacagttatccacaaggatcaatcattaatgcacgtaagtcgcgaaa
agatcagctggtaaagggccctaggtctcgcggcttccgtccaatggta
GNAI2_ORYLA 148 LNDSAAYYLKDLERISKPDYIPTQQDVLRTRVKTTGIVETHFTFKDLHF
LNDSAAYYLKDLERISKPDYIPTQQDVLRTRVKTTGIVETHFTFKDLHF
LNDSAAYYLKDLERISKPDYIPTQQDVLRTRVKTTGIVETHFTFKDLHF
OLAB1742_2 445 cagtggttcagcgaaaacgtacaccggcaacgaaagaggactatagcct
taacccaataatagtgacaatccaaattgcgtaccgttacatctaatat
ccctccccgatgggacgaccccaggcggattggccccgagccccgcgtc
GNAI2_ORYLA 197 KMFDVGGQRSERKKWIHCFEGVTAIIFCVAMSAYDLVLAEDEEMNRMHE
KMFDVGGQRSERKKWIHCFEGVTAIIFCVAMSAYDLVLAEDEEMNRMHE
KMFDVGGQRSERKKWIHCFEGVTAIIFCVAMSAYDLVLAEDEEMNRMHE
OLAB1742_2 592 aatggggcctgaaatacttgggagaattggaagtgcgcgggggaacacg
attatggagcagaagtagtagtcctttgtctgcaatttcaaaatagtaa
ggttggcggagggggccccgactcctccgcgtgccgtgtgcgggcggcg
GNAI2_ORYLA 246 SMKLFDSICNNKWFTETSIILFLNKKDLFEQKIAHSPLTICFPEYEGPN
SMKLFDSICNNKWFTETSIILFLNKKDLFEQKIAHSPLTICFPEYEGPN
SMKLFDSICNNKWFTETSIILFLNKKDLFEQKIAHSPLTICFPEYEGPN
OLAB1742_2 739 aaactgtataaattagataactcaaagctgcaagcaccaattcgtggca
gtattactgaaagtcacctttttaaaattaaatcagctctgtcaaagca
cgggtccccccggcagccccccccggtgtgggtccctgcccccgcaacc
GNAI2_ORYLA 295 TYQEAQAYIQTKFEDLNKKKETKEIYTHFTCATDTKNVQFVFDAVTDVI
TYQEAQAYIQTKFEDLNKKKETKEIYTHFTCATDTKNVQFVFDAVTDVI
TYQEAQAYIQTKFEDLNKKKETKEIYTHFTCATDTKNVQFVFDAVTDVI
OLAB1742_2 886 atcggcgtacaatggcaaaagaagatactatgagaaagctgtgggagga
caaacacatacataataaaaacaatacatcgccacaatatttactcatt
gcggcggccgcgtgtacgggacgaccctcccctccgcggtcttccctcc
GNAI2_ORYLA 344 IKNNLKDCGLF
IKNNLKDCGLF
IKNNLKDCGLF
OLAB1742_2 1033 aaaacagtgct
taaataaggtt
cgccggccccc
//
cmbi.kun.nl), 24-May-2005