Locus 5499

Sequence ID dm3.chr2R
Location 20,868,361 – 20,868,470
Length 109
Max. P 0.967341
window7548

overview

Window 8

Location 20,868,361 – 20,868,470
Length 109
Sequences 3
Columns 109
Reading direction forward
Mean pairwise identity 95.11
Shannon entropy 0.06740
G+C content 0.53067
Mean single sequence MFE -35.83
Consensus MFE -32.86
Energy contribution -33.20
Covariance contribution 0.34
Combinations/Pair 1.09
Mean z-score -2.39
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.78
SVM RNA-class probability 0.967341
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 20868361 109 + 21146708
CCUCGCCCACCGAACUCGAGCUGGGCUUAAAUAUUUGCGCUGUUGUAUUCAGAUGGCUAUUGGAUCCACCAUUGUUGGCAUCGCCGCUAACGUUGCCGAUGCCGAUACC
....((((((((....)).).)))))............((((((.......))))))...(((.....))).((((((((((((.((....)).).))))))))))).. ( -34.70, z-score =  -1.92, R)
>droSec1.super_23 725405 109 + 989336
CCUCGCCCGCCGAACUCGAGCUGGGCUUAAAUAUUUGUGCUGUUGUUUUCGACUGGCUAUUGGAUCCACCAUUGUUGGCAUCGCCGCUAAUGUUGCCGAUGCCGAUACC
....((((((((....)).)).))))............(((((((....)))).)))...(((.....))).((((((((((((.((....)).).))))))))))).. ( -35.60, z-score =  -2.39, R)
>droSim1.chr2R 19319828 108 + 19596830
CCUCGCCCGCCGAACUCGAGCUGGGCUUAAAUAUUUGUGCUGUUGUUUUCGACUGGCUAUUGGAUCCACCAUUGUUGGCAUCGC-GCUAAUGUUGCCGAUGCCGAUACC
....((((((((....)).)).))))............(((((((....)))).)))...(((.....))).(((((((((((.-((.......))))))))))))).. ( -37.20, z-score =  -2.87, R)
>consensus
CCUCGCCCGCCGAACUCGAGCUGGGCUUAAAUAUUUGUGCUGUUGUUUUCGACUGGCUAUUGGAUCCACCAUUGUUGGCAUCGCCGCUAAUGUUGCCGAUGCCGAUACC
....((((((((....)).).)))))............(((((((....)))).)))...(((.....))).((((((((((((.((....)).).))))))))))).. (-32.86 = -33.20 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:49:35 2011