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: GNAI1_HUMAN
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End default
Target Sequence AF493905_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 866.77 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.
GNAI1_HUMAN 1 GCTLSAEDKAAVERSKMIDRNLREDGEKAAREVKLLLLGAGESGKSTIV
GCTLSAEDKAAVERSKMIDRNLREDGEKAAREVKLLLLGAGESGKSTIV
GCTLSAEDKAAVERSKMIDRNLREDGEKAAREVKLLLLGAGESGKSTIV
AF493905_2 4 gtacagggaggggcaaaagcaccggggaggcggaccccggggtgaaaag
ggctgcaaacctaggattagatgaagaaccgatattttgcgacgagctt
ccggccgcggggggtggccccctgccggggcgcggggctttattatatg
GNAI1_HUMAN 50 KQMKIIHEAGYSEEECKQYKAVVYSNTIQSIIAIIRAMGRLKIDFGDSA
KQMKIIHEAGYSEEECKQYKAVVYSNTIQSIIAIIRAMGRLKIDFGDSA
KQMKIIHEAGYSEEECKQYKAVVYSNTIQSIIAIIRAMGRLKIDFGDSA
AF493905_2 151 acaaaacgggttgggtactagggtaaaactaagaaagagataagtggtg
aatattaacgacaaagaaaacttagactacttcttgctggtatatgacc
gggatctatttaaggtaacaagcctcccgatttctgtgggggacttcac
GNAI1_HUMAN 99 RADDARQLFVLAGAAEEGFMTAELAGVIKRLWKDSGVQACFNRSREYQL
RADDARQLFVLAGAAEEGFMTAELAGVIKRLWKDSGVQACFNRSREYQL
RADDARQLFVLAGAAEEGFMTAELAGVIKRLWKDSGVQACFNRSREYQL
AF493905_2 298 cggggccctgcgggggggtaaggcgggaaattagaggcgttaatcgtcc
gcaacgattttcgccaagttccatcgttagtgaaggtacgtagcgaaat
ggttacactgatattaactgtaattatagaggatttaactccacagcgt
GNAI1_HUMAN 148 NDSAAYYLNDLDRIAQPNYIPTQQDVLRTRVKTTGIVETHFTFKDLHFK
NDSAAYYLNDLDRIAQPNYIPTQQDVLRTRVKTTGIVETHFTFKDLHFK
NDSAAYYLNDLDRIAQPNYIPTQQDVLRTRVKTTGIVETHFTFKDLHFK
AF493905_2 445 agtggtttagtgaagccatacaccggcaaagaaagaggactatagccta
aacccaataatagtcacaatccaaattgcgtaccgttacatctaatata
tttaactgtcgcaataatccgtaattcatagataattactttcatttta
GNAI1_HUMAN 197 MFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHES
MFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHES
MFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHES
AF493905_2 592 atggggcatgcaatacttgggagaattggcagtgcgcgggggaacacga
ttatggagcagaagtagtagtcctttgtctgaaatttcaaaatagtaag
gttgatgatgggggttccaagggccctaagtcccgtatataagcagtac
GNAI1_HUMAN 246 MKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNT
MKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNT
MKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNT
AF493905_2 739 aattgaataaattagataactcaaagctggaaaaaccaattcgtggtaa
tattagtgaaagtcacctttttaaaattaaataagctctgacaacgcac
gagtccatccggtatactattacggtctaaacagctctactaataaaca
GNAI1_HUMAN 295 YEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVII
YEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVII
YEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVII
AF493905_2 886 tgggggtactctggcaaaagaagatactatgagaaagctgtgggaggaa
aaacccatagataataagaacaatacatcgccacaatatttactcattt
tagatattatgtacctaagcagaaccccatcattgtggtttttaatcca
GNAI1_HUMAN 344 KNNLKDCGLF
KNNLKDCGLF
KNNLKDCGLF
AF493905_2 1033 aaacagtgct
aaataaggtt
attaatttct
//
cmbi.kun.nl), 24-May-2005