Locus 3559

Sequence ID X_DroMel_CAF1
Location 9,536,609 – 9,536,699
Length 90
Max. P 0.969776
window5825

overview

Window 5

Location 9,536,609 – 9,536,699
Length 90
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 73.77
Mean single sequence MFE -26.38
Consensus MFE -10.41
Energy contribution -12.00
Covariance contribution 1.59
Combinations/Pair 1.19
Mean z-score -2.52
Structure conservation index 0.39
SVM decision value 1.65
SVM RNA-class probability 0.969776
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9536609 90 - 22224390
AUUCUCA---ACCGAUCCGUGGCGAUAAUCAAUUGAUUAGCCGCGACGAG--CCCACCAAACAAGGCGUGGGAUCAGCGAAUCUGCAGAU--CAGCG
.......---...((((((((((..(((((....)))))))))))..((.--((((((.......).))))).)).(((....))).)))--).... ( -27.70)
>DroGri_CAF1 23274 73 - 1
AUCCCCA---AAU-----GCUUUGUUAAUCAAUUGAUUAGCAGCAACAUG--CCCACCAAACACCAAA-GUUA--AAU------CCAGCAAC-----
.......---..(-----(((.((((((((....))))))))((.....)--)...............-....--...------..))))..----- ( -11.70)
>DroSec_CAF1 19924 92 - 1
AUUCUCA---ACCGAACCGUGGCGAUAAUCAAUUGAUUAGCCGCGACGAUUAGCCACCAAACAAGGCGUGGGAUCAGCGGAUCUGCAGAU--CAGCG
..(((((---.......(((.(((.(((((....)))))..))).)))....(((.........))).)))))...((.((((....)))--).)). ( -28.20)
>DroSim_CAF1 19610 90 - 1
AUUCCCA---ACCGAUCCGUGGCGAUAAUCAAUUGAUUAGCCGCGACGAG--CCCACCAAACAAGGCGUGGGAUCAGCGGAUCUGCAGAU--CAGCG
..(((((---.......(((.(((.(((((....)))))..))).))).(--((..........))).)))))...((.((((....)))--).)). ( -30.60)
>DroEre_CAF1 20721 73 - 1
--------------------UGCGAUAAUCAAUUGAUUAGCCGCGACGAG--CCCACCAAACAAGGCGUGGGAUCAGCUGAUCUGCAGAU--CAGCG
--------------------.(((.(((((....)))))..)))...((.--((((((.......).))))).)).(((((((....)))--)))). ( -28.70)
>DroYak_CAF1 24728 93 - 1
AUUCCCAAAAACCGAUCCGUUGCGAUAAUCAAUUGAUUAGCCGCGACGAG--CCCACCAAACAAGGCGUGGGAUCAGCAGAUCACCAGAU--CAGCG
..(((((..........(((((((.(((((....)))))..))))))).(--((..........))).)))))...((.((((....)))--).)). ( -31.40)
>consensus
AUUCCCA___ACCGAUCCGUGGCGAUAAUCAAUUGAUUAGCCGCGACGAG__CCCACCAAACAAGGCGUGGGAUCAGCGGAUCUGCAGAU__CAGCG
.................((((((..(((((....))))))))))).......(((((..........)))))......................... (-10.41 = -12.00 +   1.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:24 2006