Locus 4038

Sequence ID 3R_DroMel_CAF1
Location 11,029,226 – 11,029,318
Length 92
Max. P 0.638802
window6466

overview

Window 6

Location 11,029,226 – 11,029,318
Length 92
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 78.78
Mean single sequence MFE -24.72
Consensus MFE -14.66
Energy contribution -14.22
Covariance contribution -0.44
Combinations/Pair 1.38
Mean z-score -1.64
Structure conservation index 0.59
SVM decision value 0.22
SVM RNA-class probability 0.638802
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11029226 92 + 27905053
GGUCAAAACUAAAUCAAGCUUUGGAA--UCAAAAAGUCUAAACUUACAGGAUUAAGUUCCAGGCGCUGUUCAAACUCAAACUUGGGCAGCGAAA
.............((..((((.((((--(.....(((((.........)))))..)))))))))(((((((((........))))))))))).. ( -22.20)
>DroSec_CAF1 4520 92 + 1
GGUAAGAACUUAAUCACACUUUGGAG--GCAAGAAAUUAGGACUUACAGGGUUAAGUUCCAGGCGCUGUUCAAACUCAAACUUGGGCAGCGACA
.....((((((((((........(((--.(((....)).)..)))....))))))))))..(.((((((((((........)))))))))).). ( -24.60)
>DroSim_CAF1 4656 92 + 1
GGUGAGAACUAAAUCAAGCUUUGGGG--UCAAAAGUUCUGAACUUACAGGGUUAAGUUCCAGGCGCUGUUCAAACUCAAACUUGGGCAGCGACA
..((.(((((.((((.((((((....--...))))))(((......))))))).)))))))(.((((((((((........)))))))))).). ( -26.50)
>DroEre_CAF1 7371 92 + 1
GGUAAGAACUAAAUCAAACUUUGGAG--UCGAGAGAUUUGGACUUACUGGGUUCAGUUCCAGGCGCUGUUCAAACUCAAACUUCGGCAGUGAUA
............((((....((((((--(...(((.(((((((...(((((......))))).....))))))))))..)))))))...)))). ( -24.10)
>DroYak_CAF1 4715 92 + 1
GGUAAGAACUAAAUUAAACUUCAGAG--UCAAGAAAUUUUGACUUACUGGGUUCAGUUCCAGGCGCUGUUCGAACUCAAACUUGGGCAGCGAAA
.......................(((--(((((....)))))))).(((((......))))).((((((((((........))))))))))... ( -26.70)
>DroPer_CAF1 5186 91 + 1
GAUUAGUAG--AGUUAAACG-UGGAGCAACAUGUGUUCGUGGCUUACGGGGACCAAUUCCAGACGCUGCUCGAACUCAAACUUGGGUAUCGACA
.....((((--.(((...((-((.(((..((((....)))))))))))((((....)))).))).))))(((((((((....))))).)))).. ( -24.20)
>consensus
GGUAAGAACUAAAUCAAACUUUGGAG__UCAAGAAAUCUGGACUUACAGGGUUAAGUUCCAGGCGCUGUUCAAACUCAAACUUGGGCAGCGACA
................................................(((......)))...((((((((((........))))))))))... (-14.66 = -14.22 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:26 2006