Locus 2959

Sequence ID dm3.chr2R
Location 293,846 – 293,954
Length 108
Max. P 0.765024
window4062

overview

Window 2

Location 293,846 – 293,954
Length 108
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 76.11
Shannon entropy 0.32906
G+C content 0.49074
Mean single sequence MFE -29.33
Consensus MFE -18.80
Energy contribution -18.59
Covariance contribution -0.21
Combinations/Pair 1.30
Mean z-score -1.89
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.62
SVM RNA-class probability 0.765024
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 293846 108 - 21146708
CUGCUGGU--UUUACGAUAGAGCGGCUACUGGCAACCCAUCGCCAUCGCUCGCACACUACAUGUGC----------UAAACGCACCUUCGCUAUUAAAUUGAUAUCUCUCCGUAAUUUCU
.....((.--.(((((...((((((....((((........))))))))))(((((.....)))))----------.....((......))...................)))))..)). ( -25.90, z-score =  -1.97, R)
>droSec1.super_43 96816 120 - 327307
UUGUUGGUACUUCACGAUAGAGUGGCCACUGGCAACCCAUCGCCAUUUCUCGCACACUACAUGAGCUAACAGAAGUUAAACGCUCCUUCGUGUGACCACAAACGUUUCACGAUACCUUCG
((((.(((....(((((..(((((......(((........)))((((((.((.((.....)).))....))))))....)))))..)))))..)))))))........(((.....))) ( -29.30, z-score =  -1.58, R)
>droSim1.chr2h_random 1579793 120 + 3178526
CUGUUGGUACUUCACGACAGAGUGGCCACUGGCUACCCAUCGCCAUUGCCCGCACACUACAUGAGCUAACAGAAGUUAAACGCUCCUUCGUGUGACCACAAACGUUUCACGAUACCUUCG
((((((........)))))).((((.((.((((........)))).)).)))).........((((((((....))))...))))..(((((.(((.......))).)))))........ ( -32.80, z-score =  -2.10, R)
>consensus
CUGUUGGUACUUCACGAUAGAGUGGCCACUGGCAACCCAUCGCCAUUGCUCGCACACUACAUGAGCUAACAGAAGUUAAACGCUCCUUCGUGUGACCACAAACGUUUCACGAUACCUUCG
.((((.((....(((((.((.((((.((.((((........)))).)).)))).........((((...............))))))))))).....)).))))................ (-18.80 = -18.59 +  -0.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:01:01 2011