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: Q9V899_DROME
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End default
Target Sequence AE003801_60
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 3127.91 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.
Q9V899_DROME 1 MPARKGLLAPQNTFLDTIATRFDGTHSNFVLGNAQANGNPIVYCSDGFV
MPARKGLLAPQNTFLDTIATRFDGTHSNFVLGNAQANGNPIVYCSDGFV
MPARKGLLAPQNTFLDTIATRFDGTHSNFVLGNAQANGNPIVYCSDGFV
AE003801_60 1 acgcagccgccaatcgaagactggactatgcgagcgagacagtttggtg
tccgagttccaacttactccgtagcacatttgacacagacttagcagtt
gaccgggagcgcacgcccccgctcccgctgcctggatctatttcgtgcg
Q9V899_DROME 50 DLTGYSRAQIMQKGCSCHFLYGPDTKEEHKQQIEKSLSNKMELKLEVIF
DLTGYSRAQIMQKGCSCHFLYGPDTKEEHKQQIEKSLSNKMELKLEVIF
DLTGYSRAQIMQKGCSCHFLYGPDTKEEHKQQIEKSLSNKMELKLEVIF
AE003801_60 148 gtagttcgcaacagtttctctgcgaaggcaccagaactaaagcacggat
atcgacgcattaaggcgattagcacaaaaaaataagtcaatatatattt
tgaatacgatgagccattctcagtggggcggacgatcctggaggggttc
Q9V899_DROME 99 YKKEGAPFWCLFDIVPIKNEKRDVVLFLASHKDITHTKMLEMNVNEECD
YKKEGAPFWCLFDIVPIKNEKRDVVLFLASHKDITHTKMLEMNVNEECD
YKKEGAPFWCLFDIVPIKNEKRDVVLFLASHKDITHTKMLEMNVNEECD
AE003801_60 295 taagggctttttgagcaaagacgggcttgtcagaacaaacgaagaggtg
aaaagcctggttattctaaaagatttttccaaatcacattatataaaga
cggatcccgtgcctgccgtggctggctgaccgccgccgggggtgcgatt
Q9V899_DROME 148 SVFALTAALLGARFRAGSNAGMLGLGGLPGLGGPAASDGDTEAGEGNNL
SVFALTAALLGARFRAGSNAGMLGLGGLPGLGGPAASDGDTEAGEGNNL
SVFALTAALLGARFRAGSNAGMLGLGGLPGLGGPAASDGDTEAGEGNNL
AE003801_60 442 agtgcaggctggctcggtaggacgcggccgcggcggagggagggggaac
gttctcccttgcgtgcgcacgttgtggtcgtggcccgagacacgagaat
cttctatctgccgcgccctcagccgcagctgcagtctcgtgggtgcctg
Q9V899_DROME 197 DVPAGCNMGRRRSRAVLYQLSGHYKPEKGGVKTKLKLGNNFMHSTEAPF
DVPAGCNMGRRRSRAVLYQLSGHYKPEKGGVKTKLKLGNNFMHSTEAPF
DVPAGCNMGRRRSRAVLYQLSGHYKPEKGGVKTKLKLGNNFMHSTEAPF
AE003801_60 589 ggcggtaagcccacggctcctgctacgagggaaatacgaatactaggct
atccggatggggggcttaatcgaaacaaggtacatatgaattaccacct
ctcccccgtagctagtccgacgccggagtcggcggagctttgtaggggt
Q9V899_DROME 246 PEYKTQSIKKSRLILPHYGVFKGIWDWVILVATFYVALMVPYNAAFAKA
PEYKTQSIKKSRLILPHYGVFKGIWDWVILVATFYVALMVPYNAAFAKA
PEYKTQSIKKSRLILPHYGVFKGIWDWVILVATFYVALMVPYNAAFAKA
AE003801_60 736 cgtaactaaatctaccctggtagatgtgacggattggcagctaggtgag
caaacactaacgtttcaagttagtgagttttcctatctttcaacctcac
ggcacggaagacgtgctcggcgccgtggtggcccctccggcctcgtcag
Q9V899_DROME 295 DRQTKVSDVIVEALFIVDILLNFRTTFVSRKGEVVSNSKQIAINYLRGW
DRQTKVSDVIVEALFIVDILLNFRTTFVSRKGEVVSNSKQIAINYLRGW
DRQTKVSDVIVEALFIVDILLNFRTTFVSRKGEVVSNSKQIAINYLRGW
AE003801_60 883 gccaagtggagggctaggaccatcaatgtcaggggtatacagaatccgt
agacatcatttacttttatttatgccttcgagattcacaatctaatggg
tggagagtgtgggcctattgaccccccggcgcgtcctgggtcctcgaag
Q9V899_DROME 344 FALDLLAALPFDHLYASDLYDGEDSHIHLVKLTRLLRLARLLQKIDRYS
FALDLLAALPFDHLYASDLYDGEDSHIHLVKLTRLLRLARLLQKIDRYS
FALDLLAALPFDHLYASDLYDGEDSHIHLVKLTRLLRLARLLQKIDRYS
AE003801_60 1030 tgcgccggcctgcctgtgttggggtcaccgatacccccgcctcaagctt
tctattcctctaataccataagaacatattatcgttgtcgttaatagac
ccgctgcggcttcgcgctgcccgtgccttgaggtcggcttggaattacg
Q9V899_DROME 393 QHTAMILTLLMFSFTLAAHWLACIWYVIAVKEYEWFPESNIGWLQLLAE
QHTAMILTLLMFSFTLAAHWLACIWYVIAVKEYEWFPESNIGWLQLLAE
QHTAMILTLLMFSFTLAAHWLACIWYVIAVKEYEWFPESNIGWLQLLAE
AE003801_60 1177 ccagaacatcatttacggctcgtattgaggagtgttcgaaagtccctgg
aacctttcttttctctccagtcgtgattctaaaagtcagatggtattca
gtgcgagagggcccggcccggcccgtgagcggcagccgccctgggtgga
Q9V899_DROME 442 RKNASVAILTTAETYSTALYFTFTSLTSVGFGNVSANTTAEKVFTIIMM
RKNASVAILTTAETYSTALYFTFTSLTSVGFGNVSANTTAEKVFTIIMM
RKNASVAILTTAETYSTALYFTFTSLTSVGFGNVSANTTAEKVFTIIMM
AE003801_60 1324 aaagtggataaggattagtttataacatggtgagtgaaaggagtaaaaa
gaacctcttcccacaccctatctcgtcctgtgatccacccaattctttt
gactccctgcggagtcgcgccccatctcgatcctggcggcagcccccgg
Q9V899_DROME 491 LIGALMHAVVFGNVTAIIQRMYSRRSLYESKWRDLKDFVALHNMPKELK
LIGALMHAVVFGNVTAIIQRMYSRRSLYESKWRDLKDFVALHNMPKELK
LIGALMHAVVFGNVTAIIQRMYSRRSLYESKWRDLKDFVALHNMPKELK
AE003801_60 1471 caggcacgggtgagagaacaattcctctgaatcgcagtggccaacagca
ttgcttactttgatccttagtacggctaagaggataattctaatcaata
ctctggtcgcctcgtcccaggtgtcgatgcagccagctgcgctgcagag
Q9V899_DROME 540 QRIEDYFQTSWSLSHGIDIYETLREFPEELRGDVSMHLHREILQLPIFE
QRIEDYFQTSWSLSHGIDIYETLREFPEELRGDVSMHLHREILQLPIFE
QRIEDYFQTSWSLSHGIDIYETLREFPEELRGDVSMHLHREILQLPIFE
AE003801_60 1618 ccaggttcaattcacgagatgaccgtcggccgggtaccccgatcccatg
agtaaatacggctgagtataactgatcaatggatctatagattatctta
gccgcctgccgacctcctacggacatcagctcctcgtattaaagggacg
Q9V899_DROME 589 AASQGCLKLLSLHIKTNFCAPGEYLIHKGDALNYIYYLCNGSMEVIKDD
AASQGCLKLLSLHIKTNFCAPGEYLIHKGDALNYIYYLCNGSMEVIKDD
AASQGCLKLLSLHIKTNFCAPGEYLIHKGDALNYIYYLCNGSMEVIKDD
AE003801_60 1765 ggtcgtcacttccaaaattgcggtcacagggcatattttagtaggaagg
cccaggtattctatacatgccgaattaagactaataatgagctattaaa
gccgccgatgcgctggcccgcggtgccactccctcctgccatgggcgcc
Q9V899_DROME 638 MVVAILGKGDLVGSDINVHLVATSNGQMTATTNSAGQDVVVRSSSDIKA
MVVAILGKGDLVGSDINVHLVATSNGQMTATTNSAGQDVVVRSSSDIKA
MVVAILGKGDLVGSDINVHLVATSNGQMTATTNSAGQDVVVRSSSDIKA
AE003801_60 1912 agggacgaggcggtgaagccggaaagcaagaaaaggcggggcaaagaag
tttcttgagattgcatatattccgagatccccagcgaatttggggatac
ggattgtgtcggcccctgcggccctcggcccccttcgttccccccttgg
Q9V899_DROME 687 LTYCDLKCIHMGGLVEVLRLYPEYQQQFANDIQHDLTCNLREGYENQDS
LTYCDLKCIHMGGLVEVLRLYPEYQQQFANDIQHDLTCNLREGYENQDS
LTYCDLKCIHMGGLVEVLRLYPEYQQQFANDIQHDLTCNLREGYENQDS
AE003801_60 2059 cattgcatacaggcgggccttcgtccctgagaccgcatataggtgacgt
tcagatagtatggttattgtacaaaaatcaataaatcgatgagaaaaac
accttggcccgttgggaacatggtgggtccttgctcactaggccgtgcc
Q9V899_DROME 736 DIGPSFPLPSISEDDENREEAEEGGKGEKENGGGPPSGASPLHNISNSP
DIGPSFPLPSISEDDENREEAEEGGKGEKENGGGPPSGASPLHNISNSP
DIGPSFPLPSISEDDENREEAEEGGKGEKENGGGPPSGASPLHNISNSP
AE003801_60 2206 gagcttcccaaaggggacgggggggaggagagggccaggtcccaaaatc
atgcctctcgtgaaaaagaacaaggagaaaagggccggccctaatgacc
ttacatcgctctgttatcggcgagcggggactaaaattttggccacttg
Q9V899_DROME 785 LHATRSPLLGMGSPRNQRLHQRGRSLITLRETNKRHRTLNAACSLDRGS
LHATRSPLLGMGSPRNQRLHQRGRSLITLRETNKRHRTLNAACSLDRGS
LHATRSPLLGMGSPRNQRLHQRGRSLITLRETNKRHRTLNAACSLDRGS
AE003801_60 2353 ccgactcccgagacaacatcccgatcaatagaaaacaacaggtacgcgt
taccgccttgtggcgaagtaagggcttctgacaagagctaccggtaggc
gtaaataagcgatcacaggtggtatgtcagagcggtatacatttgtttc
Q9V899_DROME 834 FEEPEPLEEEQSSGGKRPSLERLDSQVSTLHQDVAQLSAEVRNAISALQ
FEEPEPLEEEQSSGGKRPSLERLDSQVSTLHQDVAQLSAEVRNAISALQ
FEEPEPLEEEQSSGGKRPSLERLDSQVSTLHQDVAQLSAEVRNAISALQ
AE003801_60 2500 tggcgccgggcttggaacttgctgtcgtatccgggccagggcagaagcc
taacactaaaaccggagcctagtacatcctaaatcatgcatgactgcta
tggcaagaggaggctagccgacgccagctgcgtgcagtgatttccccgg
Q9V899_DROME 883 EMTFTSNAMTSHSSLKFPPARSIPNISGVAGTRSGVAVEHGLMGGVLAA
EMTFTSNAMTSHSSLKFPPARSIPNISGVAGTRSGVAVEHGLMGGVLAA
EMTFTSNAMTSHSSLKFPPARSIPNISGVAGTRSGVAVEHGLMGGVLAA
AE003801_60 2647 gaatatagaatcatcatccgatacaaaggggaatgggggcgtagggtgg
atctccactccagctatcccgctcatggtcgcgcgtctaagttggttcc
agaccctcgaatttcgctaaataccatatgcaaaatacgccggcatgac
Q9V899_DROME 932 AELAAMQRSSSHPPEVWGRDVQLPTSNTASSKAPSPVEPKKTMTSRSSQ
AELAAMQRSSSHPPEVWGRDVQLPTSNTASSKAPSPVEPKKTMTSRSSQ
AELAAMQRSSSHPPEVWGRDVQLPTSNTASSKAPSPVEPKKTMTSRSSQ
AE003801_60 2794 ggtggaccattcccggtgaggcccaaaagatagctcggcaaaaaaaaac
catcctaggccaccatgggatatccgaccgcacccctacaactcgggga
tagacgattaattcgtgcgtcagccttgctcgacatggaggggctgcca
Q9V899_DROME 981 TDFYRIDFPTFERFVLANPRLVLGLLGIEPAIKNEMDLLQQKQTLQISP
TDFYRIDFPTFERFVLANPRLVLGLLGIEPAIKNEMDLLQQKQTLQISP
TDFYRIDFPTFERFVLANPRLVLGLLGIEPAIKNEMDLLQQKQTLQISP
AE003801_60 2941 agttcagtcatgctgtgacccgtgccgagcgaaagagccccacaccatc
catagtatcctagtttcacgtttgttgtacctaaatattaaaactatcc
gcctcactgctgactgctttgtgatgctacccacagtcggagacggaat
Q9V899_DROME 1030 LNTIDECVSPSDHNLASSKERLITSSAVPTPGRIYPPLDDENSNDFRWT
LNTIDECVSPSDHNLASSKERLITSSAVPTPGRIYPPLDDENSNDFRWT
LNTIDECVSPSDHNLASSKERLITSSAVPTPGRIYPPLDDENSNDFRWT
AE003801_60 3088 taaaggtgtctgcatgatagacaattggcacgcatcccgggatagtcta
tactaagtcccaaatcgcaagttcccctcccggtacctaaaacaatggc
atgatgttgtgtctgctcggaacaagacgattctcgtgttgcctttgga
Q9V899_DROME 1079 MKHSASHHSCCKSTDALLSPEEQPPISILPVDATPAPSVQEVRSSKRSL
MKHSASHHSCCKSTDALLSPEEQPPISILPVDATPAPSVQEVRSSKRSL
MKHSASHHSCCKSTDALLSPEEQPPISILPVDATPAPSVQEVRSSKRSL
AE003801_60 3235 aactgaccattaaaggccacggcccataccgggacgctgcggattaaat
taaccgaagggagcacttgcaaacctcttctacccccctaatgccaggt
ggcgctttctcgctttggtagggtgtgatagtattgatcgagacgaaca
Q9V899_DROME 1128 RKSTSGSNSSLSSSSSSSNSCLVSQSTGNLTTTNASVHCSNSSQSVASV
RKSTSGSNSSLSSSSSSSNSCLVSQSTGNLTTTNASVHCSNSSQSVASV
RKSTSGSNSSLSSSSSSSNSCLVSQSTGNLTTTNASVHCSNSSQSVASV
AE003801_60 3382 caaaagaatactaaatataatcgtcaagacaaaagtgctaaaacaggag
gagcgggacgtcgggcgcaggttcagcgatcccacctaggaggagtcgt
aacgtcccccaacctgcttttggggtgccgctgccggcccctcgtgctg
Q9V899_DROME 1177 ATTRRASWKLQHSRSGEYRRLSEATAEYSPPAKTPLPVAGVSYGGDEEE
ATTRRASWKLQHSRSGEYRRLSEATAEYSPPAKTPLPVAGVSYGGDEEE
ATTRRASWKLQHSRSGEYRRLSEATAEYSPPAKTPLPVAGVSYGGDEEE
AE003801_60 3529 gaaaagttatcctaaggtcattggaggttccgaacccggggatgggggg
cccggccgataacgggaaggtcacccaaccccacctctcgtgaggaaaa
gcgaaccgggacggcggtaaacacgtgcaatcgaattggagccgctgga
Q9V899_DROME 1226 SVELLGPRRNSRPILLGVSQNQGQGQAMNFRFSAGDADKLEKGLRGLPS
SVELLGPRRNSRPILLGVSQNQGQGQAMNFRFSAGDADKLEKGLRGLPS
SVELLGPRRNSRPILLGVSQNQGQGQAMNFRFSAGDADKLEKGLRGLPS
AE003801_60 3676 aggccgcccatacaccggacacgcgcgaatcttgggggatgagccgcct
gtattgcggacgctttgtgaaagagactatgtccgacaataagtggtcc
tcgcgattgcaaccggcacgtgcaagtgtcccgggtctagggtgtagcc
Q9V899_DROME 1275 TRSLRDPSSK
TRSLRDPSSK
TRSLRDPSSK
AE003801_60 3823 actccgcaaa
cgctgacgga
tccgatgtca
//
cmbi.kun.nl), 20-Jul-2005