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_HUMAN
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End default
Target Sequence HSGIR_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 872.49 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.
GNAI2_HUMAN 1 GCTVSAEDKAAAERSKMIDKNLREDGEKAAREVKLLLLGAGESGKSTIV
GCTVSAEDKAAAERSKMIDKNLREDGEKAAREVKLLLLGAGESGKSTIV
GCTVSAEDKAAAERSKMIDKNLREDGEKAAREVKLLLLGAGESGKSTIV
HSGIR_2 4 gtagagggaggggctaaagaaccggggaggcggatcctggggtgaaaag
ggctgcaaacccagcattaaatgaagaaccgatattttgcgacgagctt
cccgccgcgggcgctggccgcgggcaggggggggggggttggaggcccc
GNAI2_HUMAN 50 KQMKIIHEDGYSEEECRQYRAVVYSNTIQSIMAIVKAMGNLQIDFADPS
KQMKIIHEDGYSEEECRQYRAVVYSNTIQSIMAIVKAMGNLQIDFADPS
KQMKIIHEDGYSEEECRQYRAVVYSNTIQSIMAIVKAMGNLQIDFADPS
HSGIR_2 151 acaaaacgggttgggtcctcgggtaaaactaagagagagaccagtggct
aatattaaagacaaaggaagcttagactacttcttactgatatatcacc
ggggcccgtcccggacggcggtccccccgccgctcacgacggcctcccc
GNAI2_HUMAN 99 RADDARQLFALSCTAEEQGVLPDDLSGVIRRLWADHGVQACFGRSREYQ
RADDARQLFALSCTAEEQGVLPDDLSGVIRRLWADHGVQACFGRSREYQ
RADDARQLFALSCTAEEQGVLPDDLSGVIRRLWADHGVQACFGRSREYQ
HSGIR_2 298 aggggacctgcttagggcggccggctggacactggcggcgttgctagtc
gcaacgattctcgccaaagttcaatcgttggtgcaagtacgtggcgaaa
agcccggatagccccggacgcttcgccccggcgtcttggcctccagacg
GNAI2_HUMAN 148 LNDSAAYYLNDLERIAQSDYIPTQQDVLRTRVKTTGIVETHFTFKDLHF
LNDSAAYYLNDLERIAQSDYIPTQQDVLRTRVKTTGIVETHFTFKDLHF
LNDSAAYYLNDLERIAQSDYIPTQQDVLRTRVKTTGIVETHFTFKDLHF
HSGIR_2 445 cagtggttcagcgcagcagtacaccggccacgaaagaggactatagcct
taacccaataatagtcagaatccaaattgcgtaccgttacatctaatat
cccatcccgccggttagtccccagatgagccagcggcggaccccgcacc
GNAI2_HUMAN 197 KMFDVGGQRSERKKWIHCFEGVTAIIFCVALSAYDLVLAEDEEMNRMHE
KMFDVGGQRSERKKWIHCFEGVTAIIFCVALSAYDLVLAEDEEMNRMHE
KMFDVGGQRSERKKWIHCFEGVTAIIFCVALSAYDLVLAEDEEMNRMHE
HSGIR_2 592 aatggggcctgcaatacttgggagaattggtagtgtgcgggggaacacg
attatggagcagaagtagtagtcctttgtctgcaatttcaaaatagtaa
ggttgttggtgggggccctgccacccccacgcctcggatgcgggccgtg
GNAI2_HUMAN 246 SMKLFDSICNNKWFTDTSIILFLNKKDLFEEKITHSPLTICFPEYTGAN
SMKLFDSICNNKWFTDTSIILFLNKKDLFEEKITHSPLTICFPEYTGAN
SMKLFDSICNNKWFTDTSIILFLNKKDLFEEKITHSPLTICFPEYTGAN
HSGIR_2 739 aaactgaataaattagataactcaaagctggaaacaccaattcgtagga
gtattagtgaaagtcacctttttaaaattaaatcagctctgtcaacgca
cggactcccccggcacgcccccccggcgtgggcactcgcccctgcagcc
GNAI2_HUMAN 295 KYDEAASYIQSKFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVI
KYDEAASYIQSKFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVI
KYDEAASYIQSKFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVI
HSGIR_2 886 atggggatacaatggcaacagaagatactatgagaaagctgtgggagga
aaaaccgatagataataagaacaatacatcgccacaatatttactcatt
attgaccccgtgtgcgtgcaccggccgccgcccccgcggcgtcccctcc
GNAI2_HUMAN 344 IKNNLKDCGLF
IKNNLKDCGLF
IKNNLKDCGLF
HSGIR_2 1033 aaaacagtgct
taaataaggtt
cgccggccccc
//
cmbi.kun.nl), 24-May-2005