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: IRK2_HUMAN
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End default
Target Sequence AF153819
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 1062.15 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.
IRK2_HUMAN 1 MGSVRTNRYSIVSSEEDGMKLATMAVANGFGNGKSKVHTRQQCRSRFVK
MGSVRTNRYSIVSSEEDGMKLATMAVANGFGNGKSKVHTRQQCRSRFVK
MGSVRTNRYSIVSSEEDGMKLATMAVANGFGNGKSKVHTRQQCRSRFVK
AF153819 229 agagcaactaagttggggaatgaagggagtgagaaagcaccctaactga
tggtgcagagttccaaagtatcctctcagtgagagatacgaaggggtta
gctgaccccccctaaactgggccgatatctgcggtacccaagcgcctgg
IRK2_HUMAN 50 KDGHCNVQFINVGEKGQRYLADIFTTCVDIRWRWMLVIFCLAFVLSWLF
KDGHCNVQFINVGEKGQRYLADIFTTCVDIRWRWMLVIFCLAFVLSWLF
KDGHCNVQFINVGEKGQRYLADIFTTCVDIRWRWMLVIFCLAFVLSWLF
AF153819 376 aggctagctaagggagcctcggataatggactctacgattcgtgcttct
aagagatattatgaagagatcattccgtatggggtttttgtctttcgtt
atcctttgcctgtgggagccaccccgtgctcgggggtcccgtccgaggt
IRK2_HUMAN 99 FGCVFWLIALLHGDLDASKEGKACVSEVNSFTAAFLFSIETQTTIGYGF
FGCVFWLIALLHGDLDASKEGKACVSEVNSFTAAFLFSIETQTTIGYGF
FGCVFWLIALLHGDLDASKEGKACVSEVNSFTAAFLFSIETQTTIGYGF
AF153819 523 tgtgtttagcccggcggtaggagtgtggaataggtcttagacaaagtgt
tggttgttcttagataccaagacgtcatagtccctttctacacctgagt
tctgtggatgctgcgtacagcattgcgccccgtccccctgcgacacttc
IRK2_HUMAN 148 RCVTDECPIAVFMVVFQSIVGCIIDAFIIGAVMAKMAKPKKRNETLVFS
RCVTDECPIAVFMVVFQSIVGCIIDAFIIGAVMAKMAKPKKRNETLVFS
RCVTDECPIAVFMVVFQSIVGCIIDAFIIGAVMAKMAKPKKRNETLVFS
AF153819 670 atgaggtcaggtaggtctaggtaaggtaagggagaagacaaaagacgta
ggtcaagctcttttttacttggttactttgcttcatcacaagaactttg
atcgtacatttcgggcgacgccccttcctcacgcggagaggacgttcct
IRK2_HUMAN 197 HNAVIAMRDGKLCLMWRVGNLRKSHLVEAHVRAQLLKSRITSEGEYIPL
HNAVIAMRDGKLCLMWRVGNLRKSHLVEAHVRAQLLKSRITSEGEYIPL
HNAVIAMRDGKLCLMWRVGNLRKSHLVEAHVRAQLLKSRITSEGEYIPL
AF153819 817 caggagaaggacttatcggaccaactgggcgcgcccataaatgggtacc
aacttctgagatgttggtgatgagattacatgcattacgtccagaatct
ctcgtcgaccggtgggagcttgaccggatttaagccacatttaggtctg
IRK2_HUMAN 246 DQIDINVGFDSGIDRIFLVSPITIVHEIDEDSPLYDLSKQDIDNADFEI
DQIDINVGFDSGIDRIFLVSPITIVHEIDEDSPLYDLSKQDIDNADFEI
DQIDINVGFDSGIDRIFLVSPITIVHEIDEDSPLYDLSKQDIDNADFEI
AF153819 964 gcagaaggtgagagcatcgtcaaagcgagggacttgtaacgagaggtga
aatatatgtaggtagttttcctcttaataaagctaatgaaataacatat
taaccttgtctacttatggcactactaatacttattgtagctccactac
IRK2_HUMAN 295 VVILEGMVEATAMTTQCRSSYLANEILWGHRYEPVLFEEKHYYKVDYSR
VVILEGMVEATAMTTQCRSSYLANEILWGHRYEPVLFEEKHYYKVDYSR
VVILEGMVEATAMTTQCRSSYLANEILWGHRYEPVLFEEKHYYKVDYSR
AF153819 1111 ggacggagggagaaactcattcgagactgcctgcgctggacttaggtta
ttttagttaccctccagggcatcaattggagaactttaaaaaaataacg
gcagacggactcggagctcttaatacggccctgtgctaggcccagctcg
IRK2_HUMAN 344 FHKTYEVPNTPLCSARDLAEKKYILSNANSFCYENEVALTSKEEDDSEN
FHKTYEVPNTPLCSARDLAEKKYILSNANSFCYENEVALTSKEEDDSEN
FHKTYEVPNTPLCSARDLAEKKYILSNANSFCYENEVALTSKEEDDSEN
AF153819 1258 tcaatggcaacctagagtggaatactagattttgagggcaaaggggaga
taacaatcacctggcgatcaaaattcacactgaaaatctcgaaaaagaa
ccatcaccctctttcacaaagatccatatatctatatccacagacctat
IRK2_HUMAN 393 GVPESTSTDTPPDIDLHNQASVPLEPRPLRRESEI
GVPESTSTDTPPDIDLHNQASVPLEPRPLRRESEI
GVPESTSTDTPPDIDLHNQASVPLEPRPLRRESEI
AF153819 1405 ggcgaaaagaccgagccacgagccgcactccgtga
gtcagcgcacccatataaacgtctacgctggacat
ataacttgcgctcactccgatatagcgcagaggga
//
cmbi.ru.nl), 24-Jul-2003