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: wise2-1-20c $ (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: IRK1_HUMAN
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End default
Target Sequence HSU65406_12
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 946.30 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.
IRK1_HUMAN 13 IRVLTESMFKHLRKWVVTRFFGHSRQRARLVSKDGRCNIEFGNVEAQSR
IRVLTESMFKHLRKWVVTRFFGHSRQRARLVSKDGRCNIEFGNVEAQSR
IRVLTESMFKHLRKWVVTRFFGHSRQRARLVSKDGRCNIEFGNVEAQSR
HSU65406_12 31 aagtagaatacccatggacttgctccagacgtaggataagtgagggcta
tgttcagttaatgagttcgttgacgagcgttcaagggatatgatacacg
cgggaatgcattgagcctcttgttgaaagaccatagccaatctggagag
IRK1_HUMAN 62 FIFFVDIWTTVLDLKWRYKMTIFITAFLGSWFFFGLLWYAVAYIHKDLP
FIFFVDIWTTVLDLKWRYKMTIFITAFLGSWFFFGLLWYAVAYIHKDLP
FIFFVDIWTTVLDLKWRYKMTIFITAFLGSWFFFGLLWYAVAYIHKDLP
HSU65406_12 178 tattggataagcgcatataaaataagttgattttgccttgggtacagcc
tttttatgccttataggaatctttccttgggtttgttgactcataaatc
tactgccgagatccggacagctccaccggtgtcttcggtaagctcaccg
IRK1_HUMAN 111 EFHPSANHTPCVENINGLTSAFLFSLETQVTIGYGFRCVTEQCATAIFL
EFHPSANHTPCVENINGLTSAFLFSLETQVTIGYGFRCVTEQCATAIFL
EFHPSANHTPCVENINGLTSAFLFSLETQVTIGYGFRCVTEQCATAIFL
HSU65406_12 325 gtcctgacactggaaagtatgtcttcgacgaagtgtatgagctgagatc
atacccaaccgtaatagtccctttctacatctgagtggtcaagcccttt
actttctctctggtttcgcattgttggtagctatacgtgaagtctcttg
IRK1_HUMAN 160 LIFQSILGVIINSFMCGAILAKISRPKKRAKTITFSKNAVISKRGGKLC
LIFQSILGVIINSFMCGAILAKISRPKKRAKTITFSKNAVISKRGGKLC
LIFQSILGVIINSFMCGAILAKISRPKKRAKTITFSKNAVISKRGGKLC
HSU65406_12 472 catctacggaaattatggatgaatacaacgaaaataaaggaaacggact
tttacttgtttacttggcttcatcgcaagcactctgaacttgagggatg
tctgtatatacttcgtgccacgccgcaatcgctgccgcagccagaggtc
IRK1_HUMAN 209 LLIRVANLRKSLLIGSHIYGKLLKTTVTPEGETIILDQININFVVDAGN
LLIRVANLRKSLLIGSHIYGKLLKTTVTPEGETIILDQININFVVDAGN
LLIRVANLRKSLLIGSHIYGKLLKTTVTPEGETIILDQININFVVDAGN
HSU65406_12 619 ccacggacaaaccagacatgaccaaagacgggaaatgcaaaatggggga
tttgtcatgagtttggatagattacctccagactttaatatatttacga
cacagttcggctttctcttagtggcacttaagcttgcgctcctatctgt
IRK1_HUMAN 258 ENLFFISPLTIYHVIDHNSPFFHMAAETLLQQDFELVVFLDGTVESTSA
ENLFFISPLTIYHVIDHNSPFFHMAAETLLQQDFELVVFLDGTVESTSA
ENLFFISPLTIYHVIDHNSPFFHMAAETLLQQDFELVVFLDGTVESTSA
HSU65406_12 766 gatttatctaatcgagcaacttcagggaccccgtgtggttggaggtaag
aattttcctctaattaaagcttatccacttaaatatttttagctaccgc
ataccccagatctcttccctcccgaggctcggctaaggtatcaggcctt
IRK1_HUMAN 307 TCQVRTSYVPEEVLWGYRFAPIVSKTKEGKYRVDFHNFSKTVEVETPHC
TCQVRTSYVPEEVLWGYRFAPIVSKTKEGKYRVDFHNFSKTVEVETPHC
TCQVRTSYVPEEVLWGYRFAPIVSKTKEGKYRVDFHNFSKTVEVETPHC
HSU65406_12 913 atcgcattgcgggctgtctgcagtaaaggatcggtcataaaggggacct
cgatgccatcaattggagtccttcacaagaagtataatgactataccag
ccacgactcagggtgcctttcaacgagagacagtctctcgagaggctct
IRK1_HUMAN 356 AMCLYNEKDVRARMKRGYDNPNFILSEVNETDDTKM
AMCLYNEKDVRARMKRGYDNPNFILSEVNETDDTKM
AMCLYNEKDVRARMKRGYDNPNFILSEVNETDDTKM
HSU65406_12 1060 gatctagaggagaaaagtgacatattggagaggaaa
ctgtaaaaatgcgtaggaaacatttcataacaacat
cgctttgattacgggactccccccgaactaatccag
//
cmbi.ru.nl), 24-Jul-2003