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: Q20817_CAEEL
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End default
Target Sequence CEF55C5_11
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 1409.37 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.
Q20817_CAEEL 1 MNGTTKKDDKIVAGRSKSADSKWKDRMNRGLGNMSKSLPSFNKNAANAK
MNGTTKKDDKIVAGRSKSADSKWKDRMNRGLGNMSKSLPSFNKNAANAK
MNGTTKKDDKIVAGRSKSADSKWKDRMNRGLGNMSKSLPSFNKNAANAK
CEF55C5_11 1 aagaaaaggaagggaaaaggaatagcaacgcgaataatcataaaggaga
tagccaaaaattcgggagcagagaagtaggtgatcagtcgtaaaccaca
gtacagattatttagcatattagatagtattacgtatactttgtgataa
Q20817_CAEEL 50 SDKTSDTKVVIEDESKKKKKKKKKDKNLDVEELPQQEDPEVLAAKEKEK
SDKTSDTKVVIEDESKKKKKKKKKDKNLDVEELPQQEDPEVLAAKEKEK
SDKTSDTKVVIEDESKKKKKKKKKDKNLDVEELPQQEDPEVLAAKEKEK
CEF55C5_11 148 agaaagaaggagggtaaaaaaaaagaatggggccccggcggcggagaga
gaacgacatttaaacaaaaaaaaaaaatataatcaaaacattccaaaaa
ttaattaaaatataagaggaggggtgtatgaataagataaaatagaaga
Q20817_CAEEL 99 KAKVMIASRDARNKTMWRHIAWLVVLFSFSLFGGVIFSAIEGGYETTQL
KAKVMIASRDARNKTMWRHIAWLVVLFSFSLFGGVIFSAIEGGYETTQL
KAKVMIASRDARNKTMWRHIAWLVVLFSFSLFGGVIFSAIEGGYETTQL
CEF55C5_11 295 agagaagaaggcaaaatacagtcggtttttttgggatagagggtgaacc
acatttcggacgaactggatcgtttttctcttggtttgctaggaaccat
aaaagtatattatacggattagtttactttatacctcttcatttagaat
Q20817_CAEEL 148 IKKFEHEKDVYERRKIYQEQLFQRLREIEHDNTNPRGRNSSREHFKLEQ
IKKFEHEKDVYERRKIYQEQLFQRLREIEHDNTNPRGRNSSREHFKLEQ
IKKFEHEKDVYERRKIYQEQLFQRLREIEHDNTNPRGRNSSREHFKLEQ
CEF55C5_11 442 aaatgcgaggtgacaatcgcctcaccgagcgaaaccgaattcgctacgc
taataaaaataaggataaaattagtgataaaacacgggaccgaatataa
cagtatgatacgaagctagattaataatgttcttatcgtgtaattataa
Q20817_CAEEL 197 SRHALEWYEQKMGVTIEEPQMRETKWNLWGGVYYSASLYTTIGYGNFHP
SRHALEWYEQKMGVTIEEPQMRETKWNLWGGVYYSASLYTTIGYGNFHP
SRHALEWYEQKMGVTIEEPQMRETKWNLWGGVYYSASLYTTIGYGNFHP
CEF55C5_11 589 tacgtgttgcaaggaaggccaagaatattgggtttgattaaagtgatcc
cgactagaaaatgtctaacatgacagatgggtaaccgtacctgagatac
aatcgagcaaagaggtaaaagaaaagtagatacttatatattacttcta
Q20817_CAEEL 246 LTKSGRIISMMYACIGIPLVFTILLDWGFLYFTWIEYGWNRFNENFCQK
LTKSGRIISMMYACIGIPLVFTILLDWGFLYFTWIEYGWNRFNENFCQK
LTKSGRIISMMYACIGIPLVFTILLDWGFLYFTWIEYGWNRFNENFCQK
CEF55C5_11 736 caaagaaataatgtagactgtaaccgtgtcttatagtgtactagattca
tcagggttcttacgtgtctttctttaggttatcgtaaggagtaaatgaa
acattgtaaggtattttaatcatattgacgtctgtgcagtactgtttaa
Q20817_CAEEL 295 SLQRDMQRRIRRERIRRVGSELSLSSTAPLLHRTTTQLSNPVQHIESNH
SLQRDMQRRIRRERIRRVGSELSLSSTAPLLHRTTTQLSNPVQHIESNH
SLQRDMQRRIRRERIRRVGSELSLSSTAPLLHRTTTQLSNPVQHIESNH
CEF55C5_11 883 acccgacccaccgaaccggagcttttagctccaaaacctacgccagtac
gtagataggtggagtggtggatctcccccttagcccatcactaatacaa
ttaacgataataaatgttctgcggtaataatcataagtatttacaacct
Q20817_CAEEL 344 PLSPLDVDVPMGEQVQTVPIKSAAIFFFLWIMISAFIVRLWEYEWTYFT
PLSPLDVDVPMGEQVQTVPIKSAAIFFFLWIMISAFIVRLWEYEWTYFT
PLSPLDVDVPMGEQVQTVPIKSAAIFFFLWIMISAFIVRLWEYEWTYFT
CEF55C5_11 1030 ctaccggggcaggcgcagcaatggatttctaaatgtagattgtgtatta
ctgctatatctgaatactctaccctttttgtttcctttgtgaaagcatc
ggcgttatatgaaaagtaacaagactcttgtgtcgttcaagacagttct
Q20817_CAEEL 393 AFYFFFTSLTTIGLGDVVTKTPNFIIFNLAMTLIGLSVVGLCAAIVQAK
AFYFFFTSLTTIGLGDVVTKTPNFIIFNLAMTLIGLSVVGLCAAIVQAK
AFYFFFTSLTTIGLGDVVTKTPNFIIFNLAMTLIGLSVVGLCAAIVQAK
CEF55C5_11 1177 gtttttatcaaagtggggaaacataatacgaatagctgggttggagcga
ctatttcctcctgtgattcaccattttatctcttgtcttgtgccttaca
atctccataaataaatgtaaaattctttgagaataaattaatattaaaa
Q20817_CAEEL 442 VKLVFDRMLRSIDAQYRIRQVDPHVATMSIVEDEEEGVKRLIQSQSLED
VKLVFDRMLRSIDAQYRIRQVDPHVATMSIVEDEEEGVKRLIQSQSLED
VKLVFDRMLRSIDAQYRIRQVDPHVATMSIVEDEEEGVKRLIQSQSLED
CEF55C5_11 1324 gatgtgcataaaggctaaccggccggaaaaggggggggactactcttgg
tatttagttggtacaagtgatacatcctgttaaaaagtagttacactaa
cagactagggtttaacatcatttttaagttaataaatgaaataaaaaac
Q20817_CAEEL 491 RIIFLFVDEHKKSMLKERITQTYPSKADKYVQTGQRVYDQRQGSDEDLS
RIIFLFVDEHKKSMLKERITQTYPSKADKYVQTGQRVYDQRQGSDEDLS
RIIFLFVDEHKKSMLKERITQTYPSKADKYVQTGQRVYDQRQGSDEDLS
CEF55C5_11 1471 caatttgggcaaaacagcaacatctaggatgcagccgtgcccgtgggca
gttttttaaaaagttaagtcacaccacaaatacgagtaaagagcaaatg
acatgtttacgatggagaatagtaaattattattaaattataagcatgt
Q20817_CAEEL 540 DEDEEDVEYDELGNKIIPPPIRRYIYTVFD
DEDEEDVEYDELGNKIIPPPIRRYIYTVFD
DEDEEDVEYDELGNKIIPPPIRRYIYTVFD
CEF55C5_11 1618 ggggggggtggcgaaaacccacatatagtg
aaaaaataaaatgaattccctggatactta
tataattattatatgtttatttattcttct
//
cmbi.kun.nl), 28-Jul-2005