Locus 1273

Sequence ID X_DroMel_CAF1
Location 3,806,109 – 3,806,222
Length 113
Max. P 0.781444
window2041

overview

Window 1

Location 3,806,109 – 3,806,222
Length 113
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 92.57
Mean single sequence MFE -35.66
Consensus MFE -27.68
Energy contribution -27.76
Covariance contribution 0.08
Combinations/Pair 1.13
Mean z-score -1.83
Structure conservation index 0.78
SVM decision value 0.56
SVM RNA-class probability 0.781444
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3806109 113 - 22224390
AGGAGUUGCGACGCGAGCGCCAAGAAGCCGAUCAGGAAGUCUUUCAACUGGGCCAGGAAAACUCCAGACUCAGGGAAGAAAUCUCUAAGCUUCAGGAGGAAAUCCAUAAUCUU
.(((...(((.(....))))...(((((......(((..((((((..(((((.(.(((....))).).)))))))))))..)))....))))).........)))........ ( -30.70)
>DroSec_CAF1 4970 113 - 1
AGGAGUUGCGACGCGAGCGCCAAGAAGCCGACCAGGAAGUCUUUCAACUGGGCCAGGAGAACUCCAGACUCAGGGAAGAAAUCUCCAAGCUCCAAGAGGACAUCCAUAAUCUU
.(((((((((.(....))))..............(((..((((((..(((((.(.(((....))).).)))))))))))....))).))))))....((....))........ ( -33.00)
>DroSim_CAF1 4965 113 - 1
AGGAGUUGCGACGCGAGCGCCAAGAAGCCGACCAGGAAGUCUUUCAACUGGGCCAGGAGAACUCCAGACUCAGGGAAGAAAUCUCCAAGCUCCAAGAGGACAUCCGUAAUCUU
.(((((((((.(....))))..............(((..((((((..(((((.(.(((....))).).)))))))))))....))).))))))((((..((....))..)))) ( -34.10)
>DroEre_CAF1 4956 113 - 1
AGGAGUUGCGACGCGAGGGCCAAGAAGCCCAGCAGGAAGUCUUUCAAAUGGGCCAGGAGAACUCCAGGCUCAGGGAAGAAAUCUCCAAGCUCCAGGAAGACAUCCAUAAUCUU
.((((((.....((..((((......)))).)).(((..((((((...((((((.(((....))).)))))).))))))....))).)))))).(((.....)))........ ( -44.90)
>DroYak_CAF1 5035 113 - 1
AGGAGCUGCGGCGCGAGCGCCAAGAAGCCGAGCAGGAAGUCUUUCAAAUGAGCCAGGAAAACGCCAGACUCAGGGAAGAAAUCUCCAAGCUUCAGGAGAACAUCCAUACUCUU
.((..((..((((....)))).))...))(((..(((..((((((...((((.(.((......)).).)))).))))))..(((((........)))))...)))...))).. ( -35.60)
>consensus
AGGAGUUGCGACGCGAGCGCCAAGAAGCCGACCAGGAAGUCUUUCAACUGGGCCAGGAGAACUCCAGACUCAGGGAAGAAAUCUCCAAGCUCCAGGAGGACAUCCAUAAUCUU
.(((((((((.(....))))..............(((..((((((...((((.(.(((....))).).)))).))))))....))).)))))).(((.....)))........ (-27.68 = -27.76 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:29 2006