Locus 4444

Sequence ID 3R_DroMel_CAF1
Location 11,751,816 – 11,751,948
Length 132
Max. P 0.939888
window7265 window7266

overview

Window 5

Location 11,751,816 – 11,751,919
Length 103
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 88.30
Mean single sequence MFE -24.46
Consensus MFE -17.91
Energy contribution -18.43
Covariance contribution 0.52
Combinations/Pair 1.13
Mean z-score -2.47
Structure conservation index 0.73
SVM decision value 1.13
SVM RNA-class probability 0.920052
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11751816 103 - 27905053
AUCUUUUAUGUCACCAACUUUUGUUUUGAAGCUAGAGAGCUAUAUUAAAUCAGGUGGUAUAGAACAAACUCCAGUGUUUGCCUUA-UAUUGCCUAUGAUAACCA
........(((((.........(.(((((((((....))))...))))).)(((..((((((..(((((......)))))..)))-)))..))).))))).... ( -22.90)
>DroSec_CAF1 84575 103 - 1
AACUUUUAUGCCAGCAACAAUUGUUUUCGAACUAGAGAGCUAUAUUAAAUCAGGUGGUAUAGAACAAACACCAGUGUUUGUCUUA-UAUUGCCUAUGAUAGCCA
.............((.......((((((......))))))........((((((..(((((..(((((((....)))))))..))-)))..))..)))).)).. ( -27.60)
>DroSim_CAF1 86273 103 - 1
AACUUUUAUGCCACCAACAAUUGUUUUCGAACUAGAGAGCUAUAUUAAAUCAGGUGGUAUAGAACAAACUCCAGUGUUUGUCUUA-UAUUGCCUAUGAUAGCCA
.........((...........((((((......))))))........((((((..(((((..((((((......))))))..))-)))..))..)))).)).. ( -25.10)
>DroEre_CAF1 84927 103 - 1
GACUUUUAUGCCACCAACAAUUGCCUUCAAGCUAGAGAGCUUUAUUAAAUCAGGUGGUAUACAACAAACGCAACUGUUUGUCCCA-UAUUGCCUAUGAUAACCA
......(((((((((....(((......(((((....))))).....)))..)))))))))..(((((((....)))))))..((-((.....))))....... ( -20.20)
>DroYak_CAF1 88627 104 - 1
GACUUUUAUGCCACCAGCAAUUGUUUUCGAGCUAGAGAGCAAUAUUAAAUCAGGUGGCAUACAACAAACAUAACUGUUUGUCUAAUUAUUGCCUAUGAUAACCA
......(((((((((....(((((((((......))))))))).........)))))))))..(((((((....)))))))...(((((.....)))))..... ( -26.52)
>consensus
AACUUUUAUGCCACCAACAAUUGUUUUCGAGCUAGAGAGCUAUAUUAAAUCAGGUGGUAUAGAACAAACACCAGUGUUUGUCUUA_UAUUGCCUAUGAUAACCA
...((((((((((((.......((((((......))))))............))))))))))))(((((......)))))........................ (-17.91 = -18.43 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 11,751,855 – 11,751,948
Length 93
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 76.34
Mean single sequence MFE -16.69
Consensus MFE -12.88
Energy contribution -13.08
Covariance contribution 0.20
Combinations/Pair 1.41
Mean z-score -1.52
Structure conservation index 0.77
SVM decision value 1.28
SVM RNA-class probability 0.939888
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11751855 93 - 27905053
GAAACUAAUAAGAAUAAGUAGCUAUUGACAUCUUUUAUGUCACCAACUUUUGUUUUGAAGCUAGAGAGCUAUAUUAAAUCAGGUGGUAUAGAA
...((((..........((((((..((((((.....))))))....((((.(((....))).))))))))))...........))))...... ( -14.80)
>DroSec_CAF1 84614 93 - 1
GAAACUAACAAGAAUAAAAAGCUAUUGACAACUUUUAUGCCAGCAACAAUUGUUUUCGAACUAGAGAGCUAUAUUAAAUCAGGUGGUAUAGAA
.................................(((((((((.(...(((.((((((......))))))...)))......).))))))))). ( -14.30)
>DroSim_CAF1 86312 93 - 1
GAAACUAACAAGAAUAAAUAGCUAUUGACAACUUUUAUGCCACCAACAAUUGUUUUCGAACUAGAGAGCUAUAUUAAAUCAGGUGGUAUAGAA
.................................(((((((((((...(((.((((((......))))))...)))......))))))))))). ( -18.80)
>DroEre_CAF1 84966 93 - 1
GAUACUAACAAGAAUAAUUAGCUAUUGACGACUUUUAUGCCACCAACAAUUGCCUUCAAGCUAGAGAGCUUUAUUAAAUCAGGUGGUAUACAA
((((((((.........)))).)))).........(((((((((....(((......(((((....))))).....)))..)))))))))... ( -15.70)
>DroYak_CAF1 88667 93 - 1
GAAACUAAAAACAAUAAAUAGCUAUCGACGACUUUUAUGCCACCAGCAAUUGUUUUCGAGCUAGAGAGCAAUAUUAAAUCAGGUGGCAUACAA
...................................(((((((((....(((((((((......))))))))).........)))))))))... ( -21.32)
>DroAna_CAF1 85254 71 - 1
GAAAUUAACUUUUAAAAAUUUCGUUACAGGGCUUUUAUACCACUGAA----------------------UUUAUUAAAUCAGGUGGUGUAAAA
((((((..........))))))...........(((((((((((..(----------------------((.....)))..))))))))))). ( -15.20)
>consensus
GAAACUAACAAGAAUAAAUAGCUAUUGACAACUUUUAUGCCACCAACAAUUGUUUUCGAGCUAGAGAGCUAUAUUAAAUCAGGUGGUAUAGAA
.................................(((((((((((.......((((((......))))))............))))))))))). (-12.88 = -13.08 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:27 2006