Locus 889

Sequence ID X_DroMel_CAF1
Location 2,506,252 – 2,506,366
Length 114
Max. P 0.585813
window1443

overview

Window 3

Location 2,506,252 – 2,506,366
Length 114
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 81.77
Mean single sequence MFE -34.08
Consensus MFE -22.64
Energy contribution -24.07
Covariance contribution 1.44
Combinations/Pair 1.06
Mean z-score -1.66
Structure conservation index 0.66
SVM decision value 0.10
SVM RNA-class probability 0.585813
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2506252 114 + 22224390
UCAGGACUUACUCUUCCUGUAUGACGGGAAUUAACUCGUCGAUAUCCACUCGUCGUUUGUUCAGU---AACUGUCAUCGGGU---GGUGGUUUCGAUUGAAUUGAUUGACAGCGAGUGAC
.(((((........)))))..(((((((......))))))).....(((((((.(((.(((((((---(((..((((...))---))..)))...))))))).....))).))))))).. ( -36.60)
>DroSec_CAF1 4860 114 + 1
UCAGGACCUACUCUUCCUGUAUGACGGGAAUUAACUCGUCGAUAUCCACUCGUCGUUUGAUCAGU---AACUGUCAUCAGGU---GGUGGUUUCGAUGGAAUUGAUUGACAGCGAGUGAC
.(((((........)))))..(((((((......))))))).....(((((((.(.(..((((((---(((..((((...))---))..)))((....))))))))..)).))))))).. ( -36.00)
>DroSim_CAF1 5763 114 + 1
UCAGGACUCACUCUUCCUGUAUGACGGGAAUUAACUCGUCGCUAUCCACUCGUCGUUUGAUCAGU---AACUGUCAUCAGGU---GGUGGUUUCGAUGGAAUUGAUUGACAGCGAGUGAC
.(((((........)))))...((((((......))))))......(((((((.(.(..((((((---(((..((((...))---))..)))((....))))))))..)).))))))).. ( -35.70)
>DroEre_CAF1 5278 96 + 1
UCAGGACUUUCUCUUCCUGUAUG---------A---------------CGCGUCGGUUGAUCAGUCAGAACUGUCAUCAGGUUUAGAUAGUUUCGAUGGAAUUGAUUGACGGCAAGUGAC
.(((((........)))))..((---------.---------------(.(((((((..(((.(((..(((((((..........)))))))..))).).))..))))))))))...... ( -28.00)
>consensus
UCAGGACUUACUCUUCCUGUAUGACGGGAAUUAACUCGUCGAUAUCCACUCGUCGUUUGAUCAGU___AACUGUCAUCAGGU___GGUGGUUUCGAUGGAAUUGAUUGACAGCGAGUGAC
.(((((........)))))...((((((......))))))......(((((((.(.(((((((((.....(((....))).....((.....))......)))))))))).))))))).. (-22.64 = -24.07 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:21 2006