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: Q91601_XENLA
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End default
Target Sequence XL23144_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 833.73 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.
Q91601_XENLA 1 MLPKVESEALGLSRLHGEQGHMPDNMQVSQYKMMGYSYDDELEELCPVC
MLPKVESEALGLSRLHGEQGHMPDNMQVSQYKMMGYSYDDELEELCPVC
MLPKVESEALGLSRLHGEQGHMPDNMQVSQYKMMGYSYDDELEELCPVC
XL23144_2 1 accaggtggcgctatcggcgcacgaacgtctaaagtttgggcggctcgt
ttcatacactgtcgtagaagatcaatatcaaattgacaaaataatgctg
ggcaggtacgagcaacgggtcggccgagcgtaggccccctatggtttgt
Q91601_XENLA 50 GDKVSGYHYGLLTCESCKGFFKRTVQNNKRYTCIENQSCPIDKTQRKRC
GDKVSGYHYGLLTCESCKGFFKRTVQNNKRYTCIENQSCPIDKTQRKRC
GDKVSGYHYGLLTCESCKGFFKRTVQNNKRYTCIENQSCPIDKTQRKRC
XL23144_2 148 ggagtgtctgccatgatagttaaagcaaaatatagacatcagaacaaat
gaatcgaaagttcgaggagttagctaaaagacgtaaaggctaacagagg
gcgtaatttatgctgccgaccggatgccgattctatgctgttgcggggt
Q91601_XENLA 99 PYCRFQKCLSVGMKLEAVRADRMRGGRNKFGPMYKRDRAIKQQKKALIR
PYCRFQKCLSVGMKLEAVRADRMRGGRNKFGPMYKRDRAIKQQKKALIR
PYCRFQKCLSVGMKLEAVRADRMRGGRNKFGPMYKRDRAIKQQKKALIR
XL23144_2 295 cttatcattaggaacgggcggcacggaaatgcataagcgaaccaagtac
caggtaagtgtgtatactgcagtggggaatgctaagagctaaaaacttg
accgcgatgtgcgggatgaacagaagacatgagcggctaaaggagtata
Q91601_XENLA 148 ANGLKLEAIGQVIQSIPTDLTISSAIQNIHSASKGLHLNHAALPPSDYD
ANGLKLEAIGQVIQSIPTDLTISSAIQNIHSASKGLHLNHAALPPSDYD
ANGLKLEAIGQVIQSIPTDLTISSAIQNIHSASKGLHLNHAALPPSDYD
XL23144_2 442 gagcacggagcgactacagcaattgacaactgtagcccacggccctgtg
cagtatactgattactccatctccctaatacccagtataacctcccaaa
ctagaagcatactgttcttgcttacagctcaacgagtactttgcaactc
Q91601_XENLA 197 RSPFVTSPISMAMPPHGSLQGYQSYGHFPSRAIKSEYPDPYTSSPESIM
RSPFVTSPISMAMPPHGSLQGYQSYGHFPSRAIKSEYPDPYTSSPESIM
RSPFVTSPISMAMPPHGSLQGYQSYGHFPSRAIKSEYPDPYTSSPESIM
XL23144_2 589 cactgatcaaagacccgaccgtcttgctcacgaatgtcgctaatcgtaa
ggcttccctgtctccaggtagaacagatcggctacaacacacgccactt
acctagccctgtgattccggtcattgctattttaagtactcataaacag
Q91601_XENLA 246 GYSFMDSYQSSSPSNIPHLIVELLKCEPDEPQVQGKIMAYLQQEQANRS
GYSFMDSYQSSSPSNIPHLIVELLKCEPDEPQVQGKIMAYLQQEQANRS
GYSFMDSYQSSSPSNIPHLIVELLKCEPDEPQVQGKIMAYLQQEQANRS
XL23144_2 736 gtttagatctatctaacccaggctatgcggccgcgaaagttccgcgaaa
gacttagaacgcccatcatttattagacaacatagattcataaaacagg
atatgcccgcttcttcccattacgataatataagggcgacagggaccgc
Q91601_XENLA 295 KHDKLNTFGLMCKMADQTLFSIVEWARSSIFFRDLKKIK
KHDKLNTFGLMCKMADQTLFSIVEWARSSIFFRDLKKIK
KHDKLNTFGLMCKMADQTLFSIVEWARSSIFFRDLKKIK
XL23144_2 883 acgacaatgcataaggcacttaggtgaaaattagcaaaa
aaaatactgttgatcaacttcttagcgggtttgataata
actactatacgcagacgaatcttggagccctcactgaaa
//
cmbi.kun.nl), 18-Feb-2005