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: PPAT_HUMAN
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End default
Target Sequence HSU63415_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 1242.24 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.
PPAT_HUMAN 1 MGETLGDSPIDPESDSFTDTLSANISQEMTMVDTEMPFWPTNFGISSVD
MGETLGDSPIDPESDSFTDTLSANISQEMTMVDTEMPFWPTNFGISSVD
MGETLGDSPIDPESDSFTDTLSANISQEMTMVDTEMPFWPTNFGISSVD
HSU63415_2 1 aggacggtcagcgagttagactgaatcgaaaggagacttcaatgaatgg
tgactgacctacagactcactccatcaatcttacatctgccatgtgcta
gtatgattttcaactccttagtacaaaagcgtcaggacgccctgcccgt
PPAT_HUMAN 50 LSVMEDHSHSFDIKPFTTVDFSSISTPHYEDIPFTRTDPVVADYKYDLK
LSVMEDHSHSFDIKPFTTVDFSSISTPHYEDIPFTRTDPVVADYKYDLK
LSVMEDHSHSFDIKPFTTVDFSSISTPHYEDIPFTRTDPVVADYKYDLK
HSU63415_2 148 ctgaggctcttgaactaaggttaatacctggactaaagcggggtatgca
tcttaaacactatactcctatcgtcccaaaatctcgcacttcaaaaata
ccagacccccttcgcctttcccctttatcactacaaatagtatcgtcga
PPAT_HUMAN 99 LQEYQSAIKVEPASPPYYSEKTQLYNKPHEEPSNSLMAIECRVCGDKAS
LQEYQSAIKVEPASPPYYSEKTQLYNKPHEEPSNSLMAIECRVCGDKAS
LQEYQSAIKVEPASPPYYSEKTQLYNKPHEEPSNSLMAIECRVCGDKAS
HSU63415_2 295 ccgtcagaaggcgtcctttgaacctaaccggctatcagagtcgtggagt
taaaagctatacccccaacaacataaacaaaccacttctaggtggaacc
tagcatacaggtatattttggtgcctgttagtccccgatattctatatt
PPAT_HUMAN 148 GFHYGVHACEGCKGFFRRTIRLKLIYDRCDLNCRIHKKSRNKCQYCRFQ
GFHYGVHACEGCKGFFRRTIRLKLIYDRCDLNCRIHKKSRNKCQYCRFQ
GFHYGVHACEGCKGFFRRTIRLKLIYDRCDLNCRIHKKSRNKCQYCRFQ
HSU63415_2 442 gtctggcgtggtagttcaaaatacatgatgcatcacaaaaaatcttctc
gtaagtacgaggagttggctgtattaaggataggtaaaggaagaaggta
atctattttaacgtccgaacaggtctcatttctgccaatatatgctgtg
PPAT_HUMAN 197 KCLAVGMSHNAIRFGRMPQAEKEKLLAEISSDIDQLNPESADLRALAKH
KCLAVGMSHNAIRFGRMPQAEKEKLLAEISSDIDQLNPESADLRALAKH
KCLAVGMSHNAIRFGRMPQAEKEKLLAEISSDIDQLNPESADLRALAKH
HSU63415_2 589 atcgggatcagaatgcaccggagactggatagagccacgtggccgcgac
agtctgtcaactgtggtcacaaaattcatcgataatacaccatgctcaa
actagggtttccgtgggagcggggggggccttccggtagctccgcgaat
PPAT_HUMAN 246 LYDSYIKSFPLTKAKARAILTGKTTDKSPFVIYDMNSLMMGEDKIKFKH
LYDSYIKSFPLTKAKARAILTGKTTDKSPFVIYDMNSLMMGEDKIKFKH
LYDSYIKSFPLTKAKARAILTGKTTDKSPFVIYDMNSLMMGEDKIKFKH
HSU63415_2 736 ttgttaattccaagagagatagaaagatctgatgaattaagggaaatac
taacatactctcacacgcttcgaccaacctttaatactttgaaatataa
gtcacagccggcaaggggcgaagaacaaactctcgtcaggaatacgcac
PPAT_HUMAN 295 ITPLQEQSKEVAIRIFQGCQFRSVEAVQEITEYAKSIPGFVNLDLNDQV
ITPLQEQSKEVAIRIFQGCQFRSVEAVQEITEYAKSIPGFVNLDLNDQV
ITPLQEQSKEVAIRIFQGCQFRSVEAVQEITEYAKSIPGFVNLDLNDQV
HSU63415_2 883 aacccgcaagggacatcgtctctggggcgaagtgaaacgtgacgtagcg
tcctaaagaatctgttaggatgctactaatcaacagtcgttatataaat
cccggggcaggcccctgccgtccggtgggcagtcacttttattcgccaa
PPAT_HUMAN 344 TLLKYGVHEIIYTMLASLMNKDGVLISEGQGFMTREFLKSLRKPFGDFM
TLLKYGVHEIIYTMLASLMNKDGVLISEGQGFMTREFLKSLRKPFGDFM
TLLKYGVHEIIYTMLASLMNKDGVLISEGQGFMTREFLKSLRKPFGDFM
HSU63415_2 1030 accatggcgaataacgttaaagggcatggcgtaaagtcaaccactggta
cttaagtaattacttccttaaagtttcagagttcgattagtgactgatt
tccataccgctcaggccggtatgtcacgcaccgaggtagcgagtttctg
PPAT_HUMAN 393 EPKFEFAVKFNALELDDSDLAIFIAVIILSGDRPGLLNVKPIEDIQDNL
EPKFEFAVKFNALELDDSDLAIFIAVIILSGDRPGLLNVKPIEDIQDNL
EPKFEFAVKFNALELDDSDLAIFIAVIILSGDRPGLLNVKPIEDIQDNL
HSU63415_2 1177 gcatgtggatagcgtggagtgataggaacaggccgtcagacaggacgac
acatatctatactataagatctttcttttggagcgttatactaataaat
gcgtgttggctagaatcccgaatttcttctaccatggtggctactaccg
PPAT_HUMAN 442 LQALELQLKLNHPESSQLFAKLLQKMTDLRQIVTEHVQLLQVIKKTETD
LQALELQLKLNHPESSQLFAKLLQKMTDLRQIVTEHVQLLQVIKKTETD
LQALELQLKLNHPESSQLFAKLLQKMTDLRQIVTEHVQLLQVIKKTETD
HSU63415_2 1324 ccgcgcccacaccgttcctgacccaaagcacagagcgccccgaaaagag
tactatatataacaccattcattaatcatgattcaatattattaacaca
aacggcggggcctgcaggtcggcgagaccagtcgacggagggcggggac
PPAT_HUMAN 491 MSLHPLLQEIYKDLY
MSLHPLLQEIYKDLY
MSLHPLLQEIYKDLY
HSU63415_2 1471 aaccccccgatagtt
tgtacttaataaata
gttcgcgggccgcgc
//
cmbi.kun.nl), 18-Feb-2005