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: IRK10_MOUSE
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End default
Target Sequence AF322631_3
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 917.26 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.
IRK10_MOUSE 1 MTSVAKVYYSQTTQTESRPLVAPGIRRRRVLTKDGRSNVRMEHIADKRF
MTSVAKVYYSQTTQTESRPLVAPGIRRRRVLTKDGRSNVRMEHIADKRF
MTSVAKVYYSQTTQTESRPLVAPGIRRRRVLTKDGRSNVRMEHIADKRF
AF322631_3 1 aatggagttacaacagacccggcgaccaagcaaggcaagaagcaggact
tcctcataagaccacaggcttccgtggggttcaagggatgtaatcaagt
gggctgctctggtgagcccagcaaacgggccgaccgctgaggcttcatc
IRK10_MOUSE 50 LYLKDLWTTFIDMQWRYKLLLFSATFAGTWFLFGVVWYLVAVAHGDLLE
LYLKDLWTTFIDMQWRYKLLLFSATFAGTWFLFGVVWYLVAVAHGDLLE
LYLKDLWTTFIDMQWRYKLLLFSATFAGTWFLFGVVWYLVAVAHGDLLE
AF322631_3 148 ctcagctaatagactctacccttgatggattctgggttcggggcggctg
tataatgccttataggaattttccctcgcgtttgttgattctcagatta
cccgtaggcctcgagccgtgcctactacggccttgggtgatgctgcggg
IRK10_MOUSE 99 LGPPANHTPCVVQVHTLTGAFLFSLESQTTIGYGFRYISEECPLAIVLL
LGPPANHTPCVVQVHTLTGAFLFSLESQTTIGYGFRYISEECPLAIVLL
LGPPANHTPCVVQVHTLTGAFLFSLESQTTIGYGFRYISEECPLAIVLL
AF322631_3 295 cgccgacactggcgcacaggtcttcgtcaaagtgtctaaggtccgagcc
tgcccaaccgttatactcgctttctacacctgagtgatgaagctctttt
gattcccgttggggcgccacccccgacgcccctccccctgacagccgtt
IRK10_MOUSE 148 IAQLVLTTILEIFITGTFLAKIARPKKRAETIRFSQHAVVASHNGKPCL
IAQLVLTTILEIFITGTFLAKIARPKKRAETIRFSQHAVVASHNGKPCL
IAQLVLTTILEIFITGTFLAKIARPKKRAETIRFSQHAVVASHNGKPCL
AF322631_3 442 agccgcaaacgataagatcgaagccaaaggaactaccggggtcagactc
tcatttccttatttcgcttcatcgcaagcactgtgaacttccaagacgt
tggggccctgacccatcctagtcgtgggcggccccgtctgtctcggtct
IRK10_MOUSE 197 MIRVANMRKSLLIGCQVTGKLLQTHQTKEGENIRLNQVNVTFQVDTASD
MIRVANMRKSLLIGCQVTGKLLQTHQTKEGENIRLNQVNVTFQVDTASD
MIRVANMRKSLLIGCQVTGKLLQTHQTKEGENIRLNQVNVTFQVDTASD
AF322631_3 589 aacggaacaaccagtcgagacccaccaagggaaccacgagatcggagtg
ttgtcatgagtttggatcgattacaacaagaatgtaatatctataccca
gcgtctgggtcctacggacagtagcgaggtgttgccgccgtcaacacac
IRK10_MOUSE 246 SPFLILPLTFYHVVDETSPLKDLPLRSGEGDFELVLILSGTVESTSATC
SPFLILPLTFYHVVDETSPLKDLPLRSGEGDFELVLILSGTVESTSATC
SPFLILPLTFYHVVDETSPLKDLPLRSGEGDFELVLILSGTVESTSATC
AF322631_3 736 actcacccattcggggaactagccccaggggtgcgcacagaggtaagat
gcttttctctaattaacgctaatctgggagatatttttggctaccgccg
cctccacgtcccgatgcccaatcgcctgggctggggcgtgaggcctccc
IRK10_MOUSE 295 QVRTSYLPEEILWGYEFTPAISLSASGKYIADFSLFDQVVKVASPSGLR
QVRTSYLPEEILWGYEFTPAISLSASGKYIADFSLFDQVVKVASPSGLR
QVRTSYLPEEILWGYEFTPAISLSASGKYIADFSLFDQVVKVASPSGLR
AF322631_3 883 cgcattccggactgtgtacgatctgagataggtactgcggaggtcagcc
atgccatcaattggaatccctctccggaatcatgttaattatcccggtg
atctccagggccgtcgcgtgcagactcacatccctccgtgagatcttcc
IRK10_MOUSE 344 DSTVRYGDPEKLKLEESLREQAEKEGSALSVRISNV
DSTVRYGDPEKLKLEESLREQAEKEGSALSVRISNV
DSTVRYGDPEKLKLEESLREQAEKEGSALSVRISNV
AF322631_3 1030 gaagctggcgacatggttagcggaggagcagcaaag
agctgagacaatataactgaacaaaggctgtgtgat
tccactaccggcggggaaagatagactcttgccccc
//
cmbi.kun.nl), 28-Jun-2005