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: drosophila
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End local
Target Sequence HS307871
Strand: forward
Start/End (protein) local
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 283.00 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
drosophila 7 FPVLKNDNLLRAARGEVVDRVPVWVMRQAGRYLP
FP LKND LRAA GE D PVW MRQAGRYLP
FPELKNDTFLRAAWGEETDYTPVWCMRQAGRYLP
HS307871 1758 tcgcaagatccggtgggagtacgttaccggcttc
tcataaacttgccggaacaacctggtgacggatc
tggggtcacgaacgagaacctctgcgcgactcaa
drosophila 41 FQELRKHHDFFTVCRTPELACEV
F+E R DFF+ CR+PE CE+
E:E[gag] FRETRAAQDFFSTCRSPEACCEL
HS307871 1860 GGTAAGAG Intron 1 CAGAGtagacggcgttaatctcggttgc
<1-----[1861 : 1975]-1> tgacgccaattgcggccacggat
tgacgtcgctccgtcttgcctag
drosophila 65 TMQ PLRRFDLDASIIFSDILVIPQ
T+Q PLRRF LDA+IIFSDILV+PQ
TLQ PLRRFLLDAAIIFSDILVVPQ
HS307871 2047 accGTGAGGG Intron 2 CAGcccctccgggaattgacggcc
cta<0-----[2056 : 2131]-0>ctggtttacctttcattttca
tgg agtcctgttcctccccttacg
drosophila 89 ALGLTVEMHAGVGPVLPQPIVVPEDL
ALG+ V M G GP P+P+ +DL
ALGMEVTMVPGKGPSFPEPLREEQDL
HS307871 2195 GTACCCA Intron 3 CAGgcgaggaagcgagcatcgctaggcgc
<0-----[2195 : 2433]-0>ctgtatcttcgagcgtcactgaaaat
agcgggcgatcaacccagaaaaggca
drosophila 115 KRLT-PDGALSRLSYVGDAITMMRHKLEGRVPLIGFTGAP
+RL P+ S L YV AIT+ R +L GRVPLIGF GAP
ERLRDPEVVASELGYVFQAITLTRQRLAGRVPLIGFAGAP
HS307871 2512 gcccgcggggtgcgtgtcgaacaccccggcgccagtgggc
agtgacattccatgattactctcgagtcggtcttgtcgcc
acagtaagactgactgcaccctcaaagtatgggtctttca
drosophila 154 WTLMGYMIEGGGSKTMSKAKAWLNEH
WTLM YM+EGGGS TM++AK WL +
WTLMTYMVEGGGSSTMAQAKRWLYQR
HS307871 2632 GTAATGT Intron 4 TAGtacaatagggggtaaagcgactctca
<0-----[2632 : 2748]-0>gcttcattagggcgctcacaggtaag
gcggacgtgttcaccgtgcgcgctga
drosophila 180 PEDSKLFLNLLTDAIVDYLEMQVKAGAQ
P+ S +L +LTDA+V YL QV AGAQ
PQASHQLLRILTDALVPYLVGQVVAGAQ
HS307871 2827 ccgacccccacaggcgctcggcgggggcGTGAGTC Intron 5
cacgaattgttcacttcattgattcgca<0-----[2911 : 3278]
tgttcggtccctttgcatgaaaggttcg
drosophila 208 MLQVFESSAEHLSKEQFLQWCVPYLKRIRDELVDRLTKKAIPVVPM
LQ+FES A HL + F ++ +PY++ + ++ RL + + VPM
ALQLFESHAGHLGPQLFNKFALPYIRDVAKQVKARLREAGLAPVPM
HS307871 3276 TAGgtcctgtcggccgccctaatgcctacgggacgagatcgggcgcgca
-0>ctattacacgatgcattaatctcatgatcaatacgtgacgtcctct
agggtgctagttcagcccgtagtccttgcgaggcggggacgaagcg
drosophila 254 TLFAKGAGHSLKEQSELGYDVIGLDW
+FAK +L+E ++ GY+V+GLDW
IIFAKDGHFALEELAQAGYEVVGLDW
HS307871 3417 GTGAGGA Intron 6 TAGaatgaggctgcggcgcggtggggcgt
<0-----[3417 : 3575]-0>tttcaagatctaatcacgaattgtag
ccttgtgttcggggcatctggtgtcg
drosophila 280 TVDPLEA NLVGPNITLQGNLDPQ
TV P +A VG +TLQGNLDP
TVAPKKA R:R[cgg] ECVGKTVTLQGNLDPC
HS307871 3654 aggcaagCGGTAAGCC Intron 7 CAGGgtggaagatcgacgct
ctccaac <2-----[3677 : 3779]-2> agtgactctagatacg
agcagac gtgggggaggccgcct
drosophila 304 DMYRDP DELRNLTTEMVHKFGKSRYI
+Y +E+ L +M+ FG RYI
ALYASE EEIGQLVKQMLDDFGPHRYI
HS307871 3829 gttgtgGTAACAG Intron 8 CAGggagctgacacggtgcccta
ctacca<0-----[3847 : 4178]-0>aatgattaattaatgcagat
cgtatg ggcggggggggtctaatcct
drosophila 330 ANLGHGITPQTPITSMEVLVEAVHK
ANLGHG+ P + V+AVHK
ANLGHGLYPDMDPEHVGAFVDAVHK
HS307871 4239 gatgcgctcgagcgcgggtggggca
catgagtacatacaatgcttactaa
ccgctgtttcgcaatgcctgttgta
//
Gene 1
Gene 1758 4313
Exon 1758 1860 phase 0
Exon 1976 2055 phase 1
Exon 2132 2194 phase 0
Exon 2434 2631 phase 0
Exon 2749 2910 phase 0
Exon 3279 3416 phase 0
Exon 3576 3676 phase 0
Exon 3780 3846 phase 2
Exon 4179 4313 phase 0
//
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