Locus 12260

Sequence ID dm3.chr3R
Location 26,877,591 – 26,877,704
Length 113
Max. P 0.867444
window16860

overview

Window 0

Location 26,877,591 – 26,877,704
Length 113
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 86.77
Shannon entropy 0.22658
G+C content 0.39108
Mean single sequence MFE -30.74
Consensus MFE -23.78
Energy contribution -23.38
Covariance contribution -0.40
Combinations/Pair 1.21
Mean z-score -2.06
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.98
SVM RNA-class probability 0.867444
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 26877591 113 - 27905053
GAAAACAUUCAAAGUUUGUUUUACCAGAAAAU------UCUGAUAAUGCUAAGGUCUAGCUUACCAUUGGCAUACGAGAUGGUCUCGUAGAACAUGGGAUCGUUUUUCUCGUGUGAAUU
.((((((.........))))))..((((....------)))).(((((.((((......)))).))))).((((((((((((((((((.....)))))))))....))))))))).... ( -30.40, z-score =  -2.39, R)
>droEre2.scaffold_4820 9365236 119 + 10470090
GGAAACAUUCAAAGUUCGUUUUACUAGAUAAGCUCCGUUAUGAUAUUGCUAAGGUCUGGCUUACCAUUGGCAUACGAGAUGGUCUCGUAGAACAUGGGAUCGUUUUUCUCGUGCGAAUU
(....)......(((((((...((.(((.(((((((..((((....(((((((((.......))).))))))((((((.....))))))...)))))))..)))).))).))))))))) ( -30.90, z-score =  -1.14, R)
>droYak2.chr3R 27816783 119 - 28832112
GGAAACAUUCAAAGUUCGGUUUGCUACAUAAGCUCCAUUAUAAUAACCCUUGGGUGUAUCUUACCAUUGGCGUACGAGAUGGUCUCGUAGAACAUGGGAUCGUUUUUCUCGUGCGAGUU
(....)...........((...(((.....))).))...........((...((((.....))))...))((((((((((((((((((.....)))))))))....))))))))).... ( -33.60, z-score =  -1.74, R)
>droSec1.super_4 5702276 113 - 6179234
GAAAACAUUCAAAGAUCGUUUUACCAGAUAAG------UAUGAUAAUGCAAAGGUCUAGCUUACCAUUAGCAUACGAGAUGGUCUCAUAGAACAUGGGAUCGUUUUUCUCGUGCGAAUU
...............((((...((.(((...(------((((.(((((..(((......)))..))))).)))))(((((((((((((.....)))))))))))))))).))))))... ( -27.10, z-score =  -1.84, R)
>droSim1.chr3R 26524607 113 - 27517382
GAAGAAAUUCAAAGUUCGUUUUACCAGAUAAG------UAUGAUAAUGCAAAGGUCUAGCUUACCAUUAGCAUACGAGAUGGUCUCAUAGAACAUGGGAUCGUUUUUCUCGUGCGAAUU
(((....)))..(((((((...((.(((...(------((((.(((((..(((......)))..))))).)))))(((((((((((((.....)))))))))))))))).))))))))) ( -31.70, z-score =  -3.17, R)
>consensus
GAAAACAUUCAAAGUUCGUUUUACCAGAUAAG______UAUGAUAAUGCUAAGGUCUAGCUUACCAUUGGCAUACGAGAUGGUCUCGUAGAACAUGGGAUCGUUUUUCUCGUGCGAAUU
(((....)))..((((((............................(((((((((.......))).))))))((((((((((((((((.....)))))))))....))))))))))))) (-23.78 = -23.38 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:58:49 2011