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: Q8I4L4_CAEEL
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End default
Target Sequence CEF14F11_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 1262.53 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.
Q8I4L4_CAEEL 1 MVNLQRKESWMDTEHRVILNVGGIRHETYSHVLKKIPATRLSRLTPNLA
MVNLQRKESWMDTEHRVILNVGGIRHETYSHVLKKIPATRLSRLTPNLA
MVNLQRKESWMDTEHRVILNVGGIRHETYSHVLKKIPATRLSRLTPNLA
CEF14F11_3 1 agacccagttagagccgacagggaccgatacgcaaacgacttccacatg
ttatagaacgtacaagtttatggtgaacagattaatcccgtcgtccatc
ggtgagggcggcaatgacgcactcacacctcgaggtacgagccgtacga
Q8I4L4_CAEEL 50 NYDPVLNEYFFDRHPGVFSMILNYYRTGKLHYPTNVCGPLFEEELEFWG
NYDPVLNEYFFDRHPGVFSMILNYYRTGKLHYPTNVCGPLFEEELEFWG
NYDPVLNEYFFDRHPGVFSMILNYYRTGKLHYPTNVCGPLFEEELEFWG
CEF14F11_3 148 atgcgcagtttgaccggttaacattaagacctcaagtgcttgggcgttg
aaacttaaattagacgttctttaaagcgataaccatggcttaaatatgg
tctacacgccctgtgaatcgtatttattatttaattttgacgaatgtgt
Q8I4L4_CAEEL 99 LDANQVEPCCWMTYTQHRDTQDTLAVIESLDLDGDPPTQEEIAKKFGWE
LDANQVEPCCWMTYTQHRDTQDTLAVIESLDLDGDPPTQEEIAKKFGWE
LDANQVEPCCWMTYTQHRDTQDTLAVIESLDLDGDPPTQEEIAKKFGWE
CEF14F11_3 295 cggacggctttaataccagacgacggagttgtgggccacggagaatgtg
tacaatacgggtcacaagacaactcttactatagacccaaatcaatgga
ccttagagctgggtaacataaccatttaagtgtgtagagagcaagtgga
Q8I4L4_CAEEL 148 DDYYTGNMSQWQRLKPRVWALFDEPWSSKYARVISSLSVAFILASTCSF
DDYYTGNMSQWQRLKPRVWALFDEPWSSKYARVISSLSVAFILASTCSF
DDYYTGNMSQWQRLKPRVWALFDEPWSSKYARVISSLSVAFILASTCSF
CEF14F11_3 442 ggttagaatctcctacagtgttggctatatgagattctggtacgtattt
aaaacgatcagagtacgtgcttaacggcaacgttcctctctttcccgct
tctctatgaagaaaacaagaattaagtcatagatgtccatcttccacac
Q8I4L4_CAEEL 197 ILKTDPSFQIPDIDVFYSLRVVDEGGFKNYHKTIGTDKPVTSPHPNFFY
ILKTDPSFQIPDIDVFYSLRVVDEGGFKNYHKTIGTDKPVTSPHPNFFY
ILKTDPSFQIPDIDVFYSLRVVDEGGFKNYHKTIGTDKPVTSPHPNFFY
CEF14F11_3 589 acaagcttcacgaggttttcggggggtaatcaaagagacgatcccattt
ttacacctatcatattactgttaaggtaaaaactgcaactcccacatta
tcagttatatatttgtcgaacttgtgcgctcagaattaattaatactct
Q8I4L4_CAEEL 246 VDLICNIWFTIELLIRSLFCPSFHKFVRSPLTIIDVISTGAFFFESLLH
VDLICNIWFTIELLIRSLFCPSFHKFVRSPLTIIDVISTGAFFFESLLH
VDLICNIWFTIELLIRSLFCPSFHKFVRSPLTIIDVISTGAFFFESLLH
CEF14F11_3 736 ggcataattaagccaaacttcttcatgatctaaaggataggtttgtctc
tattgatgtctatttggttgcctaattgcctcttattccgctttactta
ctctctcgtatattcatgttaaccgtggttgacttctataactcaatac
Q8I4L4_CAEEL 295 AILIQTGSLVTLDFLSMICVLRLFKLTQHFSGLKILIQTFKASAQELFL
AILIQTGSLVTLDFLSMICVLRLFKLTQHFSGLKILIQTFKASAQELFL
AILIQTGSLVTLDFLSMICVLRLFKLTQHFSGLKILIQTFKASAQELFL
CEF14F11_3 883 gacacagtcgatgtctaatgcattataccttgtaacacatagtgcgctc
ctttacgcttctattcttgttgttatcaatcgtatttactacccaattt
gtctattcttagtccagcctcgacaatattcaagtctatcactaaagcg
Q8I4L4_CAEEL 344 LVFFVILAIVIFAALVYYAERSQLNKDNQFTSIPLGLWWSLVTISTVGF
LVFFVILAIVIFAALVYYAERSQLNKDNQFTSIPLGLWWSLVTISTVGF
LVFFVILAIVIFAALVYYAERSQLNKDNQFTSIPLGLWWSLVTISTVGF
CEF14F11_3 1030 tgttgacgagatggtgttggaactaagactaaactgcttatgaataggt
tttttttcttttccttaacaggataaaaatcgtctgtgggttctcctgt
gactctaatgttgagtcttgacagtgctacataagctggcggaacattt
Q8I4L4_CAEEL 393 GDMVPKTYLGMLVGSLCALMGVLTIALPVPVIVSNFSNLYSHSQARAKL
GDMVPKTYLGMLVGSLCALMGVLTIALPVPVIVSNFSNLYSHSQARAKL
GDMVPKTYLGMLVGSLCALMGVLTIALPVPVIVSNFSNLYSHSQARAKL
CEF14F11_3 1177 ggagcaattgacggtctgcaggcaagccgcgagtattatttctcgagac
gattcacatgtttgctgcttgttctctctctttcatcatacacacgcat
tcgctattaaggcaattaggtacatttatattacctatacttaaaaaat
Q8I4L4_CAEEL 442 PKKRRRVLQAHEVKPALLGVKQHHGKHRKKSSSATFNQPPANFKNANGG
PKKRRRVLQAHEVKPALLGVKQHHGKHRKKSSSATFNQPPANFKNANGG
PKKRRRVLQAHEVKPALLGVKQHHGKHRKKSSSATFNQPPANFKNANGG
CEF14F11_3 1324 caaaaagtcgcggacgctggacccgaccaaattgatacccgataagagg
caagggttacaataccttgtaaaagaagaagcccctaacccataacagg
aggagatagataagatggaaagttaataggtaaaaccaatttcgtctta
Q8I4L4_CAEEL 491 PSMHDNSASKLMA
PSMHDNSASKLMA
PSMHDNSASKLMA
CEF14F11_3 1471 ctacgatgtatag
cctaaacccattc
aagtctagaaggc
//
cmbi.kun.nl), 28-Jul-2005