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: NHR48_CAEEL
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End default
Target Sequence CEZK662_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 1927.38 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.
NHR48_CAEEL 1 MYNTRRSAYMNSCSTAMELPPQSLHQNWQDTEYVNTTCSSDMNSDMSMY
MYNTRRSAYMNSCSTAMELPPQSLHQNWQDTEYVNTTCSSDMNSDMSMY
MYNTRRSAYMNSCSTAMELPPQSLHQNWQDTEYVNTTCSSDMNSDMSMY
CEZK662_3 1 ataaaatgtaattaagagccccacccatcgagtgaaataagaatgatat
taacggccatacggcctatccagtaaagaacaataccgggatacatcta
gtttgacccgcgcccaggaaggcgcatgaccacccagctctgcgtgagt
NHR48_CAEEL 50 NDDKDDPFYEDEGSGGGTSGGGKKSSRKRANTTSSSGGNEKESKRTANK
NDDKDDPFYEDEGSGGGTSGGGKKSSRKRANTTSSSGGNEKESKRTANK
NDDKDDPFYEDEGSGGGTSGGGKKSSRKRANTTSSSGGNEKESKRTANK
CEZK662_3 148 aggaggcttggggagggaagggaatacacgaaaaaaggagagaaaagaa
aaaaaactaaaagggggcggggaacggagcaccgggggaaaagagccaa
tttactgtcacaatctacctctgacccatccgatctgctgaataatatg
NHR48_CAEEL 99 VCRVCGDKAFSYNFNVITCESCKAFFRRNANKEKEIRCPFNEQCEINMV
VCRVCGDKAFSYNFNVITCESCKAFFRRNANKEKEIRCPFNEQCEINMV
VCRVCGDKAFSYNFNVITCESCKAFFRRNANKEKEIRCPFNEQCEINMV
CEZK662_3 295 gtcgtggagtatatagaatgttagttccagaagagactctagctgaaag
tggtggaactgaatattcgacgacttggacaaaaatggctaaagatatt
gcaatccggccttctgcccgatagctgcttcagagtgtgccgataccgt
NHR48_CAEEL 148 SRRFCQRCRLTKCFAVSLAEKSHRLEELFVGMKKEWIMSEEARLEKKQR
SRRFCQRCRLTKCFAVSLAEKSHRLEELFVGMKKEWIMSEEARLEKKQR
SRRFCQRCRLTKCFAVSLAEKSHRLEELFVGMKKEWIMSEEARLEKKQR
CEZK662_3 442 tccttcctccaattggacggatcatggctggaaagtaatgggccgaacc
cggtgagggtcagtctgtcaacagtaatttgtaaagttcaacgtaaaag
gtgtcgtcgccgttggttgaagtaggggttcggaagcggggcgtgggat
NHR48_CAEEL 197 VEENRERRLQDAMNRALEEACMEDESENSYDEAPAPSHQMSVRQYLAND
VEENRERRLQDAMNRALEEACMEDESENSYDEAPAPSHQMSVRQYLAND
VEENRERRLQDAMNRALEEACMEDESENSYDEAPAPSHQMSVRQYLAND
CEZK662_3 589 gggaagcatcggaacgcgggtagggagaatgggcgctccatgcctcgag
taaagaggtaactagctaacgtaaagaagaaacccccaatctgaatcaa
cggtggggggcggttataaccggtacgttccggggaccagctagcaatt
NHR48_CAEEL 246 DAPHKSSDEVQPHLGHHGYNQKEDKMMNFYQDGPSDQGYSNHDFDYSLP
DAPHKSSDEVQPHLGHHGYNQKEDKMMNFYQDGPSDQGYSNHDFDYSLP
DAPHKSSDEVQPHLGHHGYNQKEDKMMNFYQDGPSDQGYSNHDFDYSLP
CEZK662_3 736 ggccaatgggccctgccgtacaggaaaattcggctgcgttacgtgttcc
accaagcaatacatgaagaaaaaaattataaagccaagacaaataactc
ttacgctcaaattgattcctgagtgggcctgtatgtagtttttccccta
NHR48_CAEEL 295 SNSCASSSQLDTSVNCGMCAPDVVNENLMNVAQAAVQAQAIVNHTQQLA
SNSCASSSQLDTSVNCGMCAPDVVNENLMNVAQAAVQAQAIVNHTQQLA
SNSCASSSQLDTSVNCGMCAPDVVNENLMNVAQAAVQAQAIVNHTQQLA
CEZK662_3 883 tattgttactgatgatgatgcgggagataaggcgggcgcgagacacccg
cacgcccgatacctaggtgccattaaattatcacctacacttaacaatc
acatagccggtaagctggtagtgttgtggtggaagtatgatgcccggtt
NHR48_CAEEL 344 AAVVAQQVVSNMAPVMPTVNPLDPLLAPAFIAPPMPTPINVPITTPIAG
AAVVAQQVVSNMAPVMPTVNPLDPLLAPAFIAPPMPTPINVPITTPIAG
AAVVAQQVVSNMAPVMPTVNPLDPLLAPAFIAPPMPTPINVPITTPIAG
CEZK662_3 1030 gggggccggtaagcgacagactgcccgcgtagccacacaagcaaacagg
ccttcaattcatccttcctactacttcccttccctccctatctccctcg
tttttaaggacgtaagtaacaacttgtcacctaagacactgcttgacta
NHR48_CAEEL 393 ALSTPLPPPIVPPGHSSINPVIPIIPKEMPVSVSLLNQLEQTPAEMVTV
ALSTPLPPPIVPPGHSSINPVIPIIPKEMPVSVSLLNQLEQTPAEMVTV
ALSTPLPPPIVPPGHSSINPVIPIIPKEMPVSVSLLNQLEQTPAEMVTV
CEZK662_3 1177 gctactcccagccgcttaacgacaacagacgagtctaccgcacggagag
ctccctcccttccgacctacttcttcaatctgtcttaataacccattct
acacggaagtaatgttaatgataatgaggaatagggcggaaggaggaga
NHR48_CAEEL 442 PKDMLMKLIQKNSRSTCTCSCMCGRYPPGSCIVDEVTKDLLNGGSSNSS
PKDMLMKLIQKNSRSTCTCSCMCGRYPPGSCIVDEVTKDLLNGGSSNSS
PKDMLMKLIQKNSRSTCTCSCMCGRYPPGSCIVDEVTKDLLNGGSSNSS
CEZK662_3 1324 cagacaacacaatctatatttatgctccgttaggggaagttaggataaa
caatttattaaacgccgcgcgtgggaccgcgttaatcaattagggcagg
tgcgtgataaatgaagcttccgcactacactttcgctatggttcttttc
NHR48_CAEEL 491 NATDRDETRLETTEDMQMNGLLPGDCNSSIQWLNQQSSAQAFVDPITHS
NATDRDETRLETTEDMQMNGLLPGDCNSSIQWLNQQSSAQAFVDPITHS
NATDRDETRLETTEDMQMNGLLPGDCNSSIQWLNQQSSAQAFVDPITHS
CEZK662_3 1471 agagcggaccgaaggacaagcccggtattactcaccttgcgtggcaact
accagaacgtaccaatatagttcgagacctagtaaacccacttactcac
catcgtatatgccgcgggttttttcccattagtcgaatcaactcacttc
NHR48_CAEEL 540 MTAEEAQTQRERRDSIFGSFSAADQGTVTQPKSVQEETIWEHTVAENES
MTAEEAQTQRERRDSIFGSFSAADQGTVTQPKSVQEETIWEHTVAENES
MTAEEAQTQRERRDSIFGSFSAADQGTVTQPKSVQEETIWEHTVAENES
CEZK662_3 1618 aaggggcacagccgtatgtttgggcgagaccaagcggaatgcagggagt
tccaacacagaggacttgctcccaagctcacagtaaactgaactcaaac
gaaaatatggaatcccttatggctgtaatgtattaaaccggtggtatgt
NHR48_CAEEL 589 RELSDEEIEKMEELTEISNQWISMRLDSMPILDLFSKKNVEKIVNGLKL
RELSDEEIEKMEELTEISNQWISMRLDSMPILDLFSKKNVEKIVNGLKL
RELSDEEIEKMEELTEISNQWISMRLDSMPILDLFSKKNVEKIVNGLKL
CEZK662_3 1765 cgttgggagaaggcagatactaaaccgaacacgcttaaaggaagagtac
gatcaaataataatcatcaagtgtgtagtcttattcaaataattagtat
gagccgatgagagctgagtagctgagctgatatgccagcgaatgtcggt
NHR48_CAEEL 638 LSSFRFLPQVDKRSVVKRGLFNYCVVKWMQHKESMSIDGLSDAARRDFM
LSSFRFLPQVDKRSVVKRGLFNYCVVKWMQHKESMSIDGLSDAARRDFM
LSSFRFLPQVDKRSVVKRGLFNYCVVKWMQHKESMSIDGLSDAARRDFM
CEZK662_3 1912 ctttcttccggaatggacgctattggataccagaataggcagggcagta
tcctgttcataagcttaggttaagttagtaaaagtctagtgaccggatt
caatatatatcgaaaggtctcccctcaggacgatgtatagttttcattg
NHR48_CAEEL 687 NIIRREEFNYRVQPGAFNTLAISVLFHSISDNLISTDVYMEHLVFKKLL
NIIRREEFNYRVQPGAFNTLAISVLFHSISDNLISTDVYMEHLVFKKLL
NIIRREEFNYRVQPGAFNTLAISVLFHSISDNLISTDVYMEHLVFKKLL
CEZK662_3 2059 aaaccggtatcgccggtaacgaagctcaatgacataggtagctgtaacc
attggaataagtacgctactctgtttagtcaattccatataatttaatt
tctcaagcccaggaaatcatgctgccccttcccttatttgatgtcaaat
NHR48_CAEEL 736 DKNLPIKVSSDTVYNNYYPYIIKAAKHLEKATKGLSDELVAHAVS
DKNLPIKVSSDTVYNNYYPYIIKAAKHLEKATKGLSDELVAHAVS
DKNLPIKVSSDTVYNNYYPYIIKAAKHLEKATKGLSDELVAHAVS
CEZK662_3 2206 gaaccaagtagagtaattctaaaggaccgagaagctggcggcggt
aaatctatcgactaaaaacattaccaataaccagtcaattcactc
cattccagccctccttctgcccaccatcagccaagttacctcatc
//
cmbi.kun.nl), 18-Feb-2005