Locus 1004

Sequence ID 2R_DroMel_CAF1
Location 4,208,124 – 4,208,220
Length 96
Max. P 0.659845
window1776

overview

Window 6

Location 4,208,124 – 4,208,220
Length 96
Sequences 4
Columns 112
Reading direction reverse
Mean pairwise identity 83.38
Mean single sequence MFE -26.55
Consensus MFE -20.21
Energy contribution -20.77
Covariance contribution 0.56
Combinations/Pair 1.08
Mean z-score -1.62
Structure conservation index 0.76
SVM decision value 0.27
SVM RNA-class probability 0.659845
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4208124 96 - 20766785
GGCGGAAUUAUGGGAGAGAGACUCUG-AUCUCCGGAGAUUAGUAAAAUCAACUAAUAGCUC--------------UCAACAAAUUCAAUUCUCUUCCGAUCGG-CAGCACUU
.((.((....((((((((((.(((((-.....)))))((((((.......)))))).....--------------.............)))))))))).)).)-)....... ( -25.60)
>DroSec_CAF1 19849 111 - 1
UGCGAUAUUACGGGAGAGAGCCUCUGAAUCUCCGGAGAUUAGUAAAAUCUACUAAUUGCUCCCCAACGACUUCGCUCAACAAAUUCAAUUCUCUUCCGAUCGG-CAGCACUU
((((((....((((((((((....(((((....(((((((((((.....)))))))..))))....((....))........))))).))))))))))))).)-))...... ( -28.20)
>DroSim_CAF1 46108 111 - 1
GGCGAUAUUACAGGAGAGAGCCUCUGAAUCUCCGGAGAUUAGUAAAAUCAACUAAUAGCUCCCCAACGGCUUCGCUCAACAAAUUCAAUUCUCUUCCGAUCGG-CAGCACUU
(.((((.....(((((((((((((((......)))))((((((.......)))))).))))......(((...))).............))))))...)))).-)....... ( -24.90)
>DroYak_CAF1 22374 110 - 1
GGCGAUGUUAUGGGAGAGAGACUCUG-AUC-CCGGAGAUUAUUAAAUUCACUUAAUAGCUCCCAAUCGUAUUCGCUCAACAAAUUCACUUCUCUUCCGAUCGAUCGGCACUU
(.((((....((((((((((.....(-((.-..((((.(((((((......)))))))))))..)))((....)).............))))))))))....)))).).... ( -27.50)
>consensus
GGCGAUAUUACGGGAGAGAGACUCUG_AUCUCCGGAGAUUAGUAAAAUCAACUAAUAGCUCCCCAACG_CUUCGCUCAACAAAUUCAAUUCUCUUCCGAUCGG_CAGCACUU
..((((....((((((((((.(((((......)))))((((((.......))))))................................)))))))))))))).......... (-20.21 = -20.77 +   0.56) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:50 2006