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: GNAI_ASTPE
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End default
Target Sequence APGPASMR_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 866.08 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.
GNAI_ASTPE 1 GCATSAEDKAAAERSKAIDRNLRIDGEKAAREVKLLLLGAGESGKSTIV
GCATSAEDKAAAERSKAIDRNLRIDGEKAAREVKLLLLGAGESGKSTIV
GCATSAEDKAAAERSKAIDRNLRIDGEKAAREVKLLLLGAGESGKSTIV
APGPASMR_2 4 gtgaagggaggggctagagaaccagggaggaggatcctggggtgaaaag
ggccgcaaacccagcactagatgtagaaccgatattttgcgacgagctt
tcagcaatatctggaaaacataattaagtagacagttgatagacgtatc
GNAI_ASTPE 50 KQMKIIHEEGYSEEDCKQYKPVVYSNTIQSMIAIIRAMGSLKVDFGDGD
KQMKIIHEEGYSEEDCKQYKPVVYSNTIQSMIAIIRAMGSLKVDFGDGD
KQMKIIHEEGYSEEDCKQYKPVVYSNTIQSMIAIIRAMGSLKVDFGDGD
APGPASMR_2 151 acaaaacgggttgggtactacggtaaaacaaagaacgagtcaggtgggg
aatattaaagacaaagaaaacttagactagttcttgctgctatatgaga
agggtctaacttgattggcgagtccccagtgatcaacggccaacttttc
GNAI_ASTPE 99 RTDDARQLFALAGQAEEGELSPELAAVMKRLWADGGVQGCFSRSREYQL
RTDDARQLFALAGQAEEGELSPELAAVMKRLWADGGVQGCFSRSREYQL
RTDDARQLFALAGQAEEGELSPELAAVMKRLWADGGVQGCFSRSREYQL
APGPASMR_2 298 aagggccttgcggcgggggcacgtgggaacttgggggcgttaatagtcc
gcaacgattctcgacaagatgcatccttagtgcaggtaggtggcgaaat
agtcagggtcgtcgtgataactagatcgggagttaccatcctatggtac
GNAI_ASTPE 148 NDSASYYLNALDRLAAPGYIPTQQDVLRTRVKTTGIVETHFTFKDLHFK
NDSASYYLNALDRLAAPGYIPTQQDVLRTRVKTTGIVETHFTFKDLHFK
NDSASYYLNALDRLAAPGYIPTQQDVLRTRVKTTGIVETHFTFKDLHFK
APGPASMR_2 445 agtgtttcagtgccggcgtacaccggccaagaaagaggactatagccta
aacccaatactagtcccgatccaaattgcgtaccgttacatctaatata
ttccatctctgcatacacccaagatacaaacgtttcgatcctcactccg
GNAI_ASTPE 197 MFDVGGQRSERKKWIHCFEGVTAIIFCVALSAYDLVLAEDEEMNRMHES
MFDVGGQRSERKKWIHCFEGVTAIIFCVALSAYDLVLAEDEEMNRMHES
MFDVGGQRSERKKWIHCFEGVTAIIFCVALSAYDLVLAEDEEMNRMHES
APGPASMR_2 592 atggggcctgaaatacttgggagaattggcagtgcgcgggggaacacgt
ttatggagcagaagtagtagtcctttgtctgcaatttcaaaatagtaac
gttgaagtagggagttctaagaaccctgtgtcctgcatatgagccgtgt
GNAI_ASTPE 246 MKLFDSICNNKWFTETSIILFLNKKDLFEEKITKSPLTICFPEYTGSNT
MKLFDSICNNKWFTETSIILFLNKKDLFEEKITKSPLTICFPEYTGSNT
MKLFDSICNNKWFTETSIILFLNKKDLFEEKITKSPLTICFPEYTGSNT
APGPASMR_2 739 aactgtataaattagataactcaaagttggaaaatccaattcgtagtaa
tattactgaaagtcacctttttaaaattaaatcacctctgtcaacgcac
ggatccccctggccgccccgcccggtgtgggccgaaccctcggctccca
GNAI_ASTPE 295 YEEAAAYIQMQFEDLNKRKDQKEIYTHFTCATDTNNIQFVFDAVTDVII
YEEAAAYIQMQFEDLNKRKDQKEIYTHFTCATDTNNIQFVFDAVTDVII
YEEAAAYIQMQFEDLNKRKDQKEIYTHFTCATDTNNIQFVFDAVTDVII
APGPASMR_2 886 tgggggtacactggcaacagcagatactatgagaaaactgtgggaggaa
aaacccatatataataagaaaaatacatcgccacaatatttactcattt
cgaagcctgggtgtgcgtgtgggcttccatcacccccgtctttcttcct
GNAI_ASTPE 344 KNNLKDCGLF
KNNLKDCGLF
KNNLKDCGLF
APGPASMR_2 1033 aaacagtgct
aaataaggtt
gctcgtctat
//
cmbi.kun.nl), 24-May-2005