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 244.02 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 16 QAFPPLKNDNLLRAARGEVVDRVPVWVMRQAGRYLP
Q FP LKND LRAA GE D PVW MRQAGRYLP
QGFPELKNDTFLRAAWGEETDYTPVWCMRQAGRYLP
HS307871 1752 cgtcgcaagatccggtgggagtacgttaccggcttc
agtcataaacttgccggaacaacctggtgacggatc
gttggggtcacgaacgagaacctctgcgcgactcaa
drosophila 52 FQELRKQHDFFTVCRTPELACEV
F+E R DFF+ CR+PE CE+
E:E[gag] FRETRAAQDFFSTCRSPEACCEL
HS307871 1860 GGTAAGAG Intron 1 CAGAGtagacggcgttaatctcggttgc
<1-----[1861 : 1975]-1> tgacgccaattgcggccacggat
tgacgtcgctccgtcttgcctag
drosophila 76 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 100 ALGLTVEMHAGVGPVLPQPICTPEDL
ALG+ V M G GP P+P+ +DL
ALGMEVTMVPGKGPSFPEPLREEQDL
HS307871 2195 GTACCCA Intron 3 CAGgcgaggaagcgagcatcgctaggcgc
<0-----[2195 : 2433]-0>ctgtatcttcgagcgtcactgaaaat
agcgggcgatcaacccagaaaaggca
drosophila 126 KRLT-PDGALSRLTYVGDAITMMRHKLDGRVPLIGFTGAP
+RL P+ S L YV AIT+ R +L GRVPLIGF GAP
ERLRDPEVVASELGYVFQAITLTRQRLAGRVPLIGFAGAP
HS307871 2512 gcccgcggggtgcgtgtcgaacaccccggcgccagtgggc
agtgacattccatgattactctcgagtcggtcttgtcgcc
acagtaagactgactgcaccctcaaagtatgggtctttca
drosophila 165 WTLMGYMIEGGGSKTMSKAKAWLTNY
WTLM YM+EGGGS TM++AK WL
WTLMTYMVEGGGSSTMAQAKRWLYQR
HS307871 2632 GTAATGT Intron 4 TAGtacaatagggggtaaagcgactctca
<0-----[2632 : 2748]-0>gcttcattagggcgctcacaggtaag
gcggacgtgttcaccgtgcgcgctga
drosophila 191 PEDTKLFLILLTDVIVDYLEMQVIAGAQ
P+ + +L +LTD +V YL QV+AGAQ
PQASHQLLRILTDALVPYLVGQVVAGAQ
HS307871 2827 ccgacccccacaggcgctcggcgggggcGTGAGTC Intron 5
cacgaattgttcacttcattgattcgca<0-----[2911 : 3278]
tgttcggtccctttgcatgaaaggttcg
drosophila 219 MLQVFESSAEHLSKEEFLLGSEPYLRRIRDDLVDRLTKKVIPAVPL
LQ+FES A HL + F + PY+R + + RL + + VP
ALQLFESHAGHLGPQLFNKFALPYIRDVAKQVKARLREAGLAPVP-
HS307871 3276 TAGgtcctgtcggccgccctaatgcctacgggacgagatcgggcgcgc
-0>ctattacacgatgcattaatctcatgatcaatacgtgacgtcctc
agggtgctagttcagcccgtagtccttgcgaggcggggacgaagc
drosophila 265 VSSYPNNIFTLLTYLISLL IIFAKGA
+ IIFAK
------------------M IIFAKDG
HS307871 3414 aGTGAGGA Intron 6 TAGaatgagg
t<0-----[3417 : 3575]-0>tttcaag
g ccttgtg
drosophila 291 GHSLKEQSELGYDVIGLDWTVDPVEA
+L+E ++ GY+V+GLDWTV P +A
HFALEELAQAGYEVVGLDWTVAPKKA R:R[cgg]
HS307871 3597 ctgcggcgcggtggggcgtaggcaagCGGTAAGCC Intron 7
atctaatcacgaattgtagctccaac <2-----[3677 : 3779]
ttcggggcatctggtgtcgagcagac
drosophila 317 AVVGPNITLQGNLDPQSMYCEP
VG +TLQGNLDP ++Y
ECVGKTVTLQGNLDPCALYASE
HS307871 3777 CAGGgtggaagatcgacgctgttgtgGTAACAG Intron 8 CAG
-2> agtgactctagatacgctacca<0-----[3847 : 4178]-0>
gtgggggaggccgcctcgtatg
drosophila 340 NELRSLATEMVHKCGKSRYIANVGHGITPQTPITSMEVLVEAAH
E+ L +M+ G RYIAN+GHG+ P + V+A H
EEIGQLVKQMLDDFGPHRYIANLGHGLYPDMDPEHVGAFVDAVH
HS307871 4179 ggagctgacacggtgccctagatgcgctcgagcgcgggtggggc
aatgattaattaatgcagatcatgagtacatacaatgcttacta
ggcggggggggtctaatcctccgctgtttcgcaatgcctgttgt
//
Gene 1
Gene 1752 4310
Exon 1752 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 4310 phase 0
//
|
