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: Q18434_CAEEL
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End default
Target Sequence CEC34D1_5
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 863.68 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.
Q18434_CAEEL 1 MGSCQSNENSEGNARNKEIEKQLNADKRAGSSIVKLLLLGAGECGKSTV
MGSCQSNENSEGNARNKEIEKQLNADKRAGSSIVKLLLLGAGECGKSTV
MGSCQSNENSEGNARNKEIEKQLNADKRAGSSIVKLLLLGAGECGKSTV
CEC34D1_5 1 agttcaagatggagaaagagactaggacggaaagactccggggtgatag
tgcgagaaacagacgaaataaatacaagcgggttattttgcgaggacct
gcacgctatgatcggcaataaagtgtgatattttgtgataaaataatat
Q18434_CAEEL 50 LKQMQILHSNGFTEEEVNEKRAIVYNNTVSAMCTILRAMDGVLHLPLEN
LKQMQILHSNGFTEEEVNEKRAIVYNNTVSAMCTILRAMDGVLHLPLEN
LKQMQILHSNGFTEEEVNEKRAIVYNNTVSAMCTILRAMDGVLHLPLEN
CEC34D1_5 148 cacacaccaagtaggggagacgagtaaagtgataatagagggcctctga
taatattagagtcaaataaagcttaaactcctgcttgctagttatctaa
gaggatttccacaaaaataaaattctttttagcataaagcatgtaggat
Q18434_CAEEL 99 GQKEAEKAIVMKVQENGEEGEALTEEVSKAIQSLWADPGVKKAFEMRSE
GQKEAEKAIVMKVQENGEEGEALTEEVSKAIQSLWADPGVKKAFEMRSE
GQKEAEKAIVMKVQENGEEGEALTEEVSKAIQSLWADPGVKKAFEMRSE
CEC34D1_5 295 gcagggagagaagcgaggggggcagggtagactttggcggaagtgacag
gaaacaactttataaagaagactcaatcactactgcacgtaactatgga
aaaaaagaatgaagataaaaaagaaatgaatagagattcggaatagtca
Q18434_CAEEL 148 YQLPDSAKYFLDNCQRISEPGYRPNDQDILYSRVATTGVVEVKFKIKEL
YQLPDSAKYFLDNCQRISEPGYRPNDQDILYSRVATTGVVEVKFKIKEL
YQLPDSAKYFLDNCQRISEPGYRPNDQDILYSRVATTGVVEVKFKIKEL
CEC34D1_5 442 tcccgtgattcgatccatgcgtccagcgacttcggaagggggataaagc
aatcaccaattaagagtcacgagcaaaattacgtcccgttatatataat
tatatttattgtttgtatatgtgactatttttagaattcaatatgcggt
Q18434_CAEEL 197 DFRVFDVGGQRSERRKWIHCFDNVESIIFITAISEYDQVLFEDETTNRM
DFRVFDVGGQRSERRKWIHCFDNVESIIFITAISEYDQVLFEDETTNRM
DFRVFDVGGQRSERRKWIHCFDNVESIIFITAISEYDQVLFEDETTNRM
CEC34D1_5 589 gtcgtggggcctgacatacttgaggtaataagatgtgcgctgggaaaca
atgttatggagcaggagtagtaatacttttcctcaaaatttaaaccagt
cctattgataataaaggctctttcatttcttttcattattcataggcag
Q18434_CAEEL 246 IESMQLFNSICNSTWFLSTAMILFMNKKDLFMEKIQRVNITTAFPDYEG
IESMQLFNSICNSTWFLSTAMILFMNKKDLFMEKIQRVNITTAFPDYEG
IESMQLFNSICNSTWFLSTAMILFMNKKDLFMEKIQRVNITTAFPDYEG
CEC34D1_5 736 agtacctatatatattctagaactaaaagttagaaccgaaaagtcgtgg
tactattactgaccgttccctttttaaaatttaatagtatccctcaaag
cgcggtctatttatgctaaagtttgtaatatgagtaacttgtacattat
Q18434_CAEEL 295 GQNYEEAVSFIKQKFAELNLNPDKKTIYMHETCATDTNQVQLVISSVID
GQNYEEAVSFIKQKFAELNLNPDKKTIYMHETCATDTNQVQLVISSVID
GQNYEEAVSFIKQKFAELNLNPDKKTIYMHETCATDTNQVQLVISSVID
CEC34D1_5 883 gcatggggttaacatggtatacgaaaatacgatgagaacgccgatagag
gaaaaactcttaaatcatatacaaactataacgccacaatatttcgtta
tactggccgccggattagcgtttagattgtatctacttgaatctgtttt
Q18434_CAEEL 344 TIIQKNLQKAGMM
TIIQKNLQKAGMM
TIIQKNLQKAGMM
CEC34D1_5 1030 aaacaatcaggaa
cttaaataacgtt
attggtaaaaagg
//
cmbi.kun.nl), 24-May-2005