Locus 504

Sequence ID dm3.chr2L
Location 3,555,725 – 3,555,804
Length 79
Max. P 0.774101
window678

overview

Window 8

Location 3,555,725 – 3,555,804
Length 79
Sequences 4
Columns 81
Reading direction forward
Mean pairwise identity 88.52
Shannon entropy 0.18261
G+C content 0.52520
Mean single sequence MFE -28.03
Consensus MFE -22.08
Energy contribution -22.32
Covariance contribution 0.25
Combinations/Pair 1.14
Mean z-score -1.96
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.65
SVM RNA-class probability 0.774101
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 3555725 79 + 23011544
AGAGUGAAAGACUGCGCUCGUCUUCCGAUAAAUUGGAGAUGGGCGCGUGAGG--GGUCAACCUGGAUCUGGAACUAUUAAA
..(((...(((((((((((((((.((((....))))))))))))))...(((--......))))).)))...)))...... ( -28.60, z-score =  -3.10, R)
>droSim1.chr2L 3510983 79 + 22036055
AGAGUGAAAGACUGCGCUCGUCUUCCGAUAAAUUCGAGAUGGGCGCGUGAGG--GGUCAACCUGGACCUGGAACUAUCUAA
........(((..((((((((((..(((.....)))))))))))))((...(--((((......)))))...))..))).. ( -26.90, z-score =  -1.78, R)
>droSec1.super_5 1657944 78 + 5866729
AGAGUGAAAGACUGCGCUCGUCUUCCGAUAAAUUCGAGAUGGGCGCGUGAGG--GGUCAACCUGGACCUGGAACUAUCUA-
........(((..((((((((((..(((.....)))))))))))))((...(--((((......)))))...))..))).- ( -26.90, z-score =  -1.72, R)
>droEre2.scaffold_4929 3594250 80 + 26641161
AGAGUGAAGCACUGCGCUCGUCUUCGGAUGAAUUCGAGAUGGGCGCGUGAGGAGGGGUCACUUCGGCCUGCAACUAUCUA-
(((.((...(((.((((((((((.((((....))))))))))))))))).....(((((.....))))).))....))).- ( -29.70, z-score =  -1.25, R)
>consensus
AGAGUGAAAGACUGCGCUCGUCUUCCGAUAAAUUCGAGAUGGGCGCGUGAGG__GGUCAACCUGGACCUGGAACUAUCUA_
..(((........((((((((((.((((....))))))))))))))........((((......))))....)))...... (-22.08 = -22.32 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:14:05 2011