2005, NucleaRDB.
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: Q95J17_MACFA
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End default
Target Sequence AY048698_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 1172.26 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.
Q95J17_MACFA 1 MVDTEMPFWPTNFGISSVDLSVMDDHSHSFDIKPFTTVDFSSISAPHYE
MVDTEMPFWPTNFGISSVDLSVMDDHSHSFDIKPFTTVDFSSISAPHYE
MVDTEMPFWPTNFGISSVDLSVMDDHSHSFDIKPFTTVDFSSISAPHYE
AY048698_2 1 aggagacttcaatgaatggctgaggctcttgaactaaggttaatgcctg
ttacatctgccatgtgctatcttaaacactatactcctatcgtcccaaa
gtcaggacgccctgcccgtccagcccccctccgcctttcccctttatta
Q95J17_MACFA 50 DIPFTRTDPMVADYKYDLKLQEYQSAIKVEPASPPYYSEKTQLYNKPHE
DIPFTRTDPMVADYKYDLKLQEYQSAIKVEPASPPYYSEKTQLYNKPHE
DIPFTRTDPMVADYKYDLKLQEYQSAIKVEPASPPYYSEKTQLYNKPHE
AY048698_2 148 gactaaagcagggtatgcaccgtcagaaggcgtcctttgaacctaaccg
atctcgcacttcaaaaatataaaagctatacccccaacaacataaacaa
ctacaaatggtgttgccgatagcatacaggtttattttggtgcctgtca
Q95J17_MACFA 99 EPSNSLMAIECRVCGDKASGFHYGVHACEGCKGFFRRTIRLKLIYDRCD
EPSNSLMAIECRVCGDKASGFHYGVHACEGCKGFFRRTIRLKLIYDRCD
EPSNSLMAIECRVCGDKASGFHYGVHACEGCKGFFRRTIRLKLIYDRCD
AY048698_2 295 gctatcagagtcgtggagtgtctggcgtggtagttcaaaatacatgatg
accacttctaggtggaaccgtaagtacgaggagttggctgtattaagga
gtccccgacattccatattacctattttaacgtccgaacaggtctcatt
Q95J17_MACFA 148 LNCRIHKKSRNKCQYCRFQKCLAVGMSHNAIRFGRMPQAEKEKLLAEIS
LNCRIHKKSRNKCQYCRFQKCLAVGMSHNAIRFGRMPQAEKEKLLAEIS
LNCRIHKKSRNKCQYCRFQKCLAVGMSHNAIRFGRMPQAEKEKLLAEIS
AY048698_2 442 catcacaaaaaatcttctcatcgggatcagaatgcaccggagactggat
taggtaaaggaagaaggtaagtctgtcaactgtggtcacaaaattcatc
tctgccaatatatgctgtgactagggtttccgtgggaacggggggggcc
Q95J17_MACFA 197 SDIDQLNPESADLRALAKHLYDSYIKSFPLTKAKARAILTGKTTDKSPF
SDIDQLNPESADLRALAKHLYDSYIKSFPLTKAKARAILTGKTTDKSPF
SDIDQLNPESADLRALAKHLYDSYIKSFPLTKAKARAILTGKTTDKSPF
AY048698_2 589 agagccacgtggccgcgacttgttaattccaagagagatagaaagatct
gataatacaccatgctcaataacatactctcacacgcttcgaccaacct
ttccggcagctccgcgaatgtcacagccggcaaggggcgaagaacaaac
Q95J17_MACFA 246 VIYDMNSLMMGEDKIKFKHITPLQEQSKEVAIRIFQGCQFRSVEAVQEI
VIYDMNSLMMGEDKIKFKHITPLQEQSKEVAIRIFQGCQFRSVEAVQEI
VIYDMNSLMMGEDKIKFKHITPLQEQSKEVAIRIFQGCQFRSVEAVQEI
AY048698_2 736 gatgaattaagggaaatacaacccgcaagggacatcgtctctggggcga
ttaatactttgaaatataatcctaaagaatctgttaggatgctactaat
tctcgtcaggaatacgcacccgggggcaggtccctgccgtccggtgggc
Q95J17_MACFA 295 TEYAKSIPGFVNLDLNDQVTLLKYGVHEIIYTMLASLMNKDGVFISEGQ
TEYAKSIPGFVNLDLNDQVTLLKYGVHEIIYTMLASLMNKDGVFISEGQ
TEYAKSIPGFVNLDLNDQVTLLKYGVHEIIYTMLASLMNKDGVFISEGQ
AY048698_2 883 agtgaaacgtgacgtagcgaccatggcgaataacgttaaagggtatggc
caacagtcgttatataaatcttaagtaattacttccttaaagtttcaga
agtcactttcattcgccaatccatactgctcaggccggtatgtcacgca
Q95J17_MACFA 344 GFMTREFLKSLRKPFGDFMEPKFEFAVKFNALELDDSDLAIFIAVIILS
GFMTREFLKSLRKPFGDFMEPKFEFAVKFNALELDDSDLAIFIAVIILS
GFMTREFLKSLRKPFGDFMEPKFEFAVKFNALELDDSDLAIFIAVIILS
AY048698_2 1030 gtaaagtcaaccactggtagcatgtggatagcgtggagtgataggaaca
gttcgattagtgactgattacatatctatactataagatctttcttttg
ccgagatagcgagtttctggcgtgttggctagaatcccgaatttcttct
Q95J17_MACFA 393 GDRPGLLNVKPIEDIQDNLLQALELQLKLNHPESSQLFAKLLQKMTDLR
GDRPGLLNVKPIEDIQDNLLQALELQLKLNHPESSQLFAKLLQKMTDLR
GDRPGLLNVKPIEDIQDNLLQALELQLKLNHPESSQLFAKLLQKMTDLR
AY048698_2 1177 ggccgtcagacaggacgacccgcgcccacaccgttcctgacccaaagca
gagcgttatactaataaattactatatataacaccattcattaatcatg
atcatggtggctactaccgaacggcggggcctgcgggtcggcgagacca
Q95J17_MACFA 442 QIVTEHVQLLQVIKKTETDMSLHPLLQEIYKDLY
QIVTEHVQLLQVIKKTETDMSLHPLLQEIYKDLY
QIVTEHVQLLQVIKKTETDMSLHPLLQEIYKDLY
AY048698_2 1324 cagagcgccccgaaaagagaaccccccgatagtt
attcaatattattaacacatgtacttaataaata
gtcgacggagggcggggacgttcgcgggccgcgc
//
cmbi.kun.nl), 18-Feb-2005