Locus 11343

Sequence ID dm3.chr3R
Location 20,435,956 – 20,436,038
Length 82
Max. P 0.879830
window15599

overview

Window 9

Location 20,435,956 – 20,436,038
Length 82
Sequences 4
Columns 82
Reading direction reverse
Mean pairwise identity 80.20
Shannon entropy 0.32511
G+C content 0.56799
Mean single sequence MFE -30.27
Consensus MFE -15.70
Energy contribution -19.20
Covariance contribution 3.50
Combinations/Pair 1.09
Mean z-score -2.58
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.04
SVM RNA-class probability 0.879830
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 20435956 82 - 27905053
CAACAGAAUUAGACAAGCCCACAACACAGCAGCCCACCACGGAAGUGGGGGGAAUGUUUGGAGUGGGGGUGUAACCAGGGGG
............(((..(((((..((.((((.(((.((((....)))))))...))))))..)))))..))).......... ( -31.00, z-score =  -2.71, R)
>droYak2.chr3R 2768874 82 + 28832112
CAACAGAAUUAGACAAGCCCACAACAUAGCAGCAGCCCAGCAAGAAGGGGGAAGGCUGUUGAAGGGGGUGGAGGUUUGGGUG
.............(((((((((..(.(((((((..(((..(.....).)))...)))))))...)..)))..)))))).... ( -25.30, z-score =  -2.13, R)
>droSec1.super_0 20769594 80 - 21120651
CAACAGAAUUAGACAAGCCCACAACACAGCAGCCCACCAUGGAAGUGGGGGA--UGCUUGGAGUGGGGUUGUAACCAGGGGG
............((((.(((((..((.((((.(((.((((....))))))).--))))))..))))).)))).......... ( -31.80, z-score =  -2.86, R)
>droSim1.chr3R 20273708 80 - 27517382
CAACAGAAUUAGACAAGCCCACAACACAGCAGCCCACCAUGGAAGUGGGGGG--UGGCUGGAGUGGGGUUGUAACCAGGGGG
............((((.(((((....((((.((((.((((....)))).)))--).))))..))))).)))).......... ( -33.00, z-score =  -2.62, R)
>consensus
CAACAGAAUUAGACAAGCCCACAACACAGCAGCCCACCAUGGAAGUGGGGGA__UGUUUGGAGUGGGGUUGUAACCAGGGGG
............((((.(((((..((.((((.(((.((((....)))))))...))))))..))))).)))).......... (-15.70 = -19.20 +   3.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:41:12 2011