Locus 2183

Sequence ID X_DroMel_CAF1
Location 5,906,556 – 5,906,673
Length 117
Max. P 0.566490
window3543

overview

Window 3

Location 5,906,556 – 5,906,673
Length 117
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 70.98
Mean single sequence MFE -40.57
Consensus MFE -14.67
Energy contribution -16.07
Covariance contribution 1.39
Combinations/Pair 1.26
Mean z-score -1.86
Structure conservation index 0.36
SVM decision value 0.07
SVM RNA-class probability 0.566490
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5906556 117 + 22224390
GCGCAGCCAUCUGAGGCCGGUUAAUUCCGCUGGUUCCGGUAUAGGAUUAUCAAGCGGAUCUGCUGGAUCUGCUGGAUCUGCUGGAUCUUCUGGAUCAGGAUCAAGAUCAGGUGGGGU
......((((((((....((((...((((..((.((((((...(((((....((((((((.....)))))))).))))))))))).))..))))....))))....))))))))... ( -46.00)
>DroSec_CAF1 1436 99 + 1
GCGCAGCCAUCUGAGGCCAGUUAAUUCCGCUGGUUCCGGUAUAGGAUUAACAAGCGGAUCUGC------------------UGGAUCUUCGGGAUCAGGAUCAAGAUCAGGAGGGGU
((.(..((..(((((((((((....((((((.(((((......)))...)).))))))...))------------------)))..))))))((((........)))).))..).)) ( -36.00)
>DroSim_CAF1 1437 99 + 1
GCGCAGCCAUCUGAGGCCGGUUAAUUCCGCUGGUUCCGGUACAGGAUUAACAAGCGGAUCUGC------------------UGGAUCUUCGGAAUCAGGAUCAAGAUCAGGAGGGGU
((.(..((.((((((((((((....((((((.(((((......)))...)).))))))...))------------------)))..))))))).....(((....))).))..).)) ( -34.20)
>DroEre_CAF1 1465 99 + 1
GCGCAGCCAGCUGAGGCCGGUUAGUUCCUCCGUAUCCGGCAUCGGCUUAGCAGGCGGAUCUGC------------------UGGAUCCGCUGGAUCAGGAUCAGGAUCAGGUGGAGU
......(((.((((..((((((...(((..((.((((((((((.(((.....))).))..)))------------------))))).))..)))....)))).)).)))).)))... ( -39.90)
>DroYak_CAF1 1409 99 + 1
GCGCAGCCAUCUGCGGCCGGUCAACUCCUCUGGUUCCGGCAUGGGAUUAGCAGGCGGUCCUGC------------------UGGAUCUGCUGGAACAGGAUCAGGAUCAGGAGGAGU
.(((((....)))))........((((((((.(((((((((.((..((((((((....)))))------------------))).)))))))))))..(((....))).)))))))) ( -45.70)
>DroAna_CAF1 13230 99 + 1
ACGCACUCACCUGCGACCAGUCAGCUCAGCAGGAUCCGG------AUCCAUCAGCAGAUCUGCA------GCAGGCUCUGGCCUAGUAUCUGGAUCUGGAUCUGGGUCUGG------
.((((......)))).((((...(((((....(((((((------(((((...(((....))).------((((((....)))).))...)))))))))))))))))))))------ ( -41.60)
>consensus
GCGCAGCCAUCUGAGGCCGGUUAAUUCCGCUGGUUCCGGUAUAGGAUUAACAAGCGGAUCUGC__________________UGGAUCUUCUGGAUCAGGAUCAAGAUCAGGAGGGGU
..((((((......)))........((((((...(((......)))......))))))..)))......................(((.(..((((........))))..).))).. (-14.67 = -16.07 +   1.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:11 2006