Locus 3542

Sequence ID 3R_DroMel_CAF1
Location 9,586,699 – 9,586,799
Length 100
Max. P 0.598436
window5694

overview

Window 4

Location 9,586,699 – 9,586,799
Length 100
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 94.70
Mean single sequence MFE -24.86
Consensus MFE -22.14
Energy contribution -21.66
Covariance contribution -0.48
Combinations/Pair 1.13
Mean z-score -1.19
Structure conservation index 0.89
SVM decision value 0.13
SVM RNA-class probability 0.598436
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9586699 100 + 27905053
AUGAGAGUUCUAUGAACUUCCGCAAGAUUGCAUAUUUCACAUAUUGCGCAUACGCAAUGUUAGCAGACCCAGAAAGCAUAUCAAGCUGAGAAUUCUCAGG
.((((((((((......(((.(((....))).........((((((((....))))))))...........)))(((.......))).)))))))))).. ( -24.60)
>DroSec_CAF1 63002 100 + 1
AUGAGAGUUCUAUGAACUUCCGCAAGAUUGCAUAUUUCACAUAUUGCGCAUACGCAGUGUUAGCCGACCCAGAAAUCAUAUCAAGCUGAGAAUUCUUGGG
..(..(((((...)))))..)(((....))).........((((((((....)))))))).......(((((((.(((........)))...))).)))) ( -21.50)
>DroSim_CAF1 73198 100 + 1
AUGAGAGUUCUAUGAACUUCCGCAAGAUUGCAUAUUUCACAUAUUGCGCAUACGCAGUGUUAGCCGACCCAGAAAGCAUAUCAAGCGGAGAAUUCUCAGG
.(((((((((........(((((..((((((.........((((((((....))))))))....(......)...))).)))..)))))))))))))).. ( -29.20)
>DroEre_CAF1 65841 100 + 1
AAGAGAGUUCUAUGAACUUCCGCAAGAUUGCAUAUUUCACAUAUUGCGCAUACGCAGUGUUAGCCGACCCAGAAAGCACAUCAAGCUGAGAAUUCUCAGG
..(((((((((......(((.(((....))).........((((((((....))))))))...........)))(((.......))).)))))))))... ( -23.80)
>DroYak_CAF1 63647 100 + 1
AUGAGAGUUCUAUGAACUUCCGCAAGAUUGCAUACUCCACAUAUUGCGCAUACGCAGUGUUAGCCGACCCCGAAAGCAAAUCAAGCUGGGAAUUCUCGGG
.((((((((((.(((.....(....).((((.........((((((((....))))))))....((....))...)))).))).....)))))))))).. ( -25.20)
>consensus
AUGAGAGUUCUAUGAACUUCCGCAAGAUUGCAUAUUUCACAUAUUGCGCAUACGCAGUGUUAGCCGACCCAGAAAGCAUAUCAAGCUGAGAAUUCUCAGG
..(((((((((.(((......(((....))).........((((((((....))))))))....................))).....)))))))))... (-22.14 = -21.66 +  -0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:48 2006