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: ESR2_SHEEP
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End default
Target Sequence AF177936_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 1306.76 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.
ESR2_SHEEP 1 MDVKNSPSSLNSPVSYNCGQSILPLEPGPIYLPSSYVESRHEYSAVTFY
MDVKNSPSSLNSPVSYNCGQSILPLEPGPIYLPSSYVESRHEYSAVTFY
MDVKNSPSSLNSPVSYNCGQSILPLEPGPIYLPSSYVESRHEYSAVTFY
AF177936_2 1 aggaatctacatcgttatgctacccgcgcattctttggaccgttggatt
tataacccgtacctcaaggacttctacgctatcccataggaaacctcta
gtcacaatctcttcctcctactacggaccatactctagcctacacgact
ESR2_SHEEP 50 SPAVMNYSIPNNSEDGPGRQTTSPNVLWPTPGHLSPLAIHCQSSLLYAE
SPAVMNYSIPNNSEDGPGRQTTSPNVLWPTPGHLSPLAIHCQSSLLYAE
SPAVMNYSIPNNSEDGPGRQTTSPNVLWPTPGHLSPLAIHCQSSLLYAE
AF177936_2 148 acggaataacaatgggcgccaaacagttcacgcctctgactcttcctgg
gccttaagtcaacaagcggaccgcattgcccgatcctctagaccttaca
cttggtcttctcaatgttagcacataggattaccttacctcggatgtaa
ESR2_SHEEP 99 PQKSPWCETRSLEHTFPVNRETLKRKASGSSCASPVSSPSSKRDAHFCA
PQKSPWCETRSLEHTFPVNRETLKRKASGSSCASPVSSPSSKRDAHFCA
PQKSPWCETRSLEHTFPVNRETLKRKASGSSCASPVSSPSSKRDAHFCA
AF177936_2 295 ccaacttgaattgcatcgaagataaagagaatgacgtacataaggcttg
caagcggacgctaactctagactagacgggggcgctcgcgcagacatgc
tagttgtacaaaaccctgcggagagattgcttccttttgtaggtccctt
ESR2_SHEEP 148 VCSDYASGYHYGVWSCEGCKAFFKRSIQGHNDYICPATNQCTIDKNRRK
VCSDYASGYHYGVWSCEGCKAFFKRSIQGHNDYICPATNQCTIDKNRRK
VCSDYASGYHYGVWSCEGCKAFFKRSIQGHNDYICPATNQCTIDKNRRK
AF177936_2 442 gtagtgtgtctggtttggtagttaaaacgcagtatcgaactaagaacca
tggaaccgaaagtgcgaggacttaggtagaaaatgcccaagctaaagga
cccttggatctacgataatgcttaactaattttttatatgtcatgcata
ESR2_SHEEP 197 SCQACRLRKCYEVGMVKCGSRRERCGYRIVRRQRNSDEQLHCLSKTKRN
SCQACRLRKCYEVGMVKCGSRRERCGYRIVRRQRNSDEQLHCLSKTKRN
SCQACRLRKCYEVGMVKCGSRRERCGYRIVRRQRNSDEQLHCLSKTKRN
AF177936_2 589 atcgtcccattgggagatgtcagatgtcagcacaatggccctcaaaaaa
ggacggtgagaatgttaggcggagggagttggagacaaatagtgacaga
ctgctagggctgcagggtccgaagtgccagaggatttgggccgcacggc
ESR2_SHEEP 246 GAPMTRVKELLLSALSPEQLVLTLLEAEPPHVLMSRPSAPFTEASMMMS
GAPMTRVKELLLSALSPEQLVLTLLEAEPPHVLMSRPSAPFTEASMMMS
GAPMTRVKELLLSALSPEQLVLTLLEAEPPHVLMSRPSAPFTEASMMMS
AF177936_2 736 ggcaacgagcccagcacgccgcaccgggcccgcaaccagctaggtaaat
gcctcgtaatttgctgcaatttcttacaccatttggcgcctcacctttc
tacgcaggggggtcgcaggggttcggcggccgcgccccgcctgccgggc
ESR2_SHEEP 295 LTKLADKELVHMISWAKKIPGFVELSLYDQVRLLESCWLEVLMVGLMWR
LTKLADKELVHMISWAKKIPGFVELSLYDQVRLLESCWLEVLMVGLMWR
LTKLADKELVHMISWAKKIPGFVELSLYDQVRLLESCWLEVLMVGLMWR
AF177936_2 883 taacggagcgcaaatgaaacgtggcactgcgcctgatttggcaggcatc
tcatcaaattattggcaatcgttatgtaaatgttagggtattttgttgg
gcggccgagacgccgcggtgccggccgccaggcggccggggcggggggc
ESR2_SHEEP 344 SIDHPGKLIFAPDLVLDRDEGKCVEGILEIFDMLLATTSRFRELKLQHK
SIDHPGKLIFAPDLVLDRDEGKCVEGILEIFDMLLATTSRFRELKLQHK
SIDHPGKLIFAPDLVLDRDEGKCVEGILEIFDMLLATTSRFRELKLQHK
AF177936_2 1030 tagccgacatgcgcgcgagggatgggacgatgaccgaatatcgtaccca
ctaacgatttccatttagaagagtagttattatttccccgtgatataaa
ccccccgccttacctgcgtagattaataactcgcgagtagttgaacaca
ESR2_SHEEP 393 EYLCVKAMILLNSSMYPSATASQEADSGRKLTHLLNAVTDALVWVIAKS
EYLCVKAMILLNSSMYPSATASQEADSGRKLTHLLNAVTDALVWVIAKS
EYLCVKAMILLNSSMYPSATASQEADSGRKLTHLLNAVTDALVWVIAKS
AF177936_2 1177 gtctgagaaccataatctgagtcgggagcacacccaggaggcgtgagaa
aatgtacttttacgtaccccccaacagggatcattactcacttgttcag
atctcgcgccccctgctataacggtctcgggtcggtcggctgcggtcgc
ESR2_SHEEP 442 GMSSQQQSMRLANLLMLLSHVRHASNKGMEHLLNMKCKNVVPVYDLLLE
GMSSQQQSMRLANLLMLLSHVRHASNKGMEHLLNMKCKNVVPVYDLLLE
GMSSQQQSMRLANLLMLLSHVRHASNKGMEHLLNMKCKNVVPVYDLLLE
AF177936_2 1324 gattccctaccgaccacctcgacgaaagagcccaaataaggcgtgcccg
gtccaaactgtcatttttcatgacgaagtaattatagaattctaattta
cgccgagcgcgtcgggcgttcgtctcgcgacgccggcatggccctgggg
ESR2_SHEEP 491 MLNAHTLRSNKPLVTRSERNLAEDSESKEGSQKPQAQ
MLNAHTLRSNKPLVTRSERNLAEDSESKEGSQKPQAQ
MLNAHTLRSNKPLVTRSERNLAEDSESKEGSQKPQAQ
AF177936_2 1471 acagcaccaaactgaatgcacgggagaaggtcaccgc
ttacactggaacttcgcagatcaagagaagcaacaca
ggtccgtcccgtgcagtgccgggctgcagccgacgtg
//
cmbi.kun.nl), 18-Feb-2005