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: GNAO1_HUMAN
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End default
Target Sequence AF493894_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 867.49 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.
GNAO1_HUMAN 1 GCTLSAEERAALERSKAIEKNLKEDGISAAKDVKLLLLGAGESGKSTIV
GCTLSAEERAALERSKAIEKNLKEDGISAAKDVKLLLLGAGESGKSTIV
GCTLSAEERAALERSKAIEKNLKEDGISAAKDVKLLLLGAGESGKSTIV
AF493894_2 4 gtacagggaggcgcaagagaacagggaaggaggatcccggggtgaaaag
ggctgcaagcctaggactaaataaagtgccaatattttgcgacgagctt
attgcaggacccggcggtgaccagtcccccacgaacgcgtaaaaacctg
GNAO1_HUMAN 50 KQMKIIHEDGFSGEDVKQYKPVVYSNTIQSLAAIVRAMDTLGIEYGDKE
KQMKIIHEDGFSGEDVKQYKPVVYSNTIQSLAAIVRAMDTLGIEYGDKE
KQMKIIHEDGFSGEDVKQYKPVVYSNTIQSLAAIVRAMDTLGIEYGDKE
AF493894_2 151 acaaaacgggttggggactacggtaaaactcggagcgagatgagtggag
aatattaaagtcgaataaaacttagactactccttgctactgtaagaaa
ggggcctatcccaacgagcgttcccctcgcgacccgcgctgccatttgg
GNAO1_HUMAN 99 RKADAKMVCDVVSRMEDTEPFSAELLSAMMRLWGDSGIQECFNRSREYQ
RKADAKMVCDVVSRMEDTEPFSAELLSAMMRLWGDSGIQECFNRSREYQ
RKADAKMVCDVVSRMEDTEPFSAELLSAMMRLWGDSGIQECFNRSREYQ
AF493894_2 298 aagggaagtgggacaggagcttggcctgaacctggtgacgttactcgtc
gacacattgattggtaacactccattccttgtggacgtaagtagcgaaa
agtccgggttggtggaccgcctaggttcgggcgccaacagcccgcggtg
GNAO1_HUMAN 148 LNDSAKYYLDSLDRIGAADYQPTEQDILRTRVKTTGIVETHFTFKNLHF
LNDSAKYYLDSLDRIGAADYQPTEQDILRTRVKTTGIVETHFTFKNLHF
LNDSAKYYLDSLDRIGAADYQPTEQDILRTRVKTTGIVETHFTFKNLHF
AF493894_2 445 cagtgattcgacgcaggggtccagcgaccaagaaagaggactataacct
taaccaaatagtagtgccaaaccaaattgcgtaccgttacatctaatat
ccctcaccgccgtgtgccccgccggcccacgcactccaacccacgcccc
GNAO1_HUMAN 197 RLFDVGGQRSERKKWIHCFEDVTAIIFCVALSGYDQVLHEDETTNRMHE
RLFDVGGQRSERKKWIHCFEDVTAIIFCVALSGYDQVLHEDETTNRMHE
RLFDVGGQRSERKKWIHCFEDVTAIIFCVALSGYDQVLHEDETTNRMHE
AF493894_2 592 actggggcctgcaatacttgggagaattggcagtgcgccgggaaacacg
gttatggagcagaagtagtaatcctttgtctggaaattaaaaccagtaa
ggtccacgatacgggctccgccgcctctcgccctcggccacacgccgcg
GNAO1_HUMAN 246 SLMLFDSICNNKFFIDTSIILFLNKKDLFGEKIKKSPLTICFPEYTGPN
SLMLFDSICNNKFFIDTSIILFLNKKDLFGEKIKKSPLTICFPEYTGPN
SLMLFDSICNNKFFIDTSIILFLNKKDLFGEKIKKSPLTICFPEYTGPN
AF493894_2 739 tcactgtataaattagataactcaaagctggaaaatctaattcgtagca
cttttactgaaatttacctttttaaaattgaataacctctgtcaacgca
tcgccccctccgccctccctccccgatctcggcggatgcccttacacct
GNAO1_HUMAN 295 TYEDAAAYIQAQFESKNRSPNKEIYCHMTCATDTNNIQVVFDAVTDIII
TYEDAAAYIQAQFESKNRSPNKEIYCHMTCATDTNNIQVVFDAVTDIII
TYEDAAAYIQAQFESKNRSPNKEIYCHMTCATDTNNIQVVFDAVTDIII
AF493894_2 886 atgggggtacgctgaaactcaagattcaatgagaaaacggtgggagaaa
caaacccatacatagaagccaaatagatcgccacaatatttactcattt
ctacaccccaaatacaccaccaaattcgttcacgtccgggcccccccct
GNAO1_HUMAN 344 ANNLRGCGLY
ANNLRGCGLY
ANNLRGCGLY
AF493894_2 1033 gaaccgtgtt
caatggggta
ccccgcccgc
//
cmbi.kun.nl), 24-May-2005