Locus 8873

Sequence ID dm3.chr3R
Location 2,336,059 – 2,336,164
Length 105
Max. P 0.583321
window12175

overview

Window 5

Location 2,336,059 – 2,336,164
Length 105
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 60.60
Shannon entropy 0.54114
G+C content 0.34766
Mean single sequence MFE -22.43
Consensus MFE -11.36
Energy contribution -9.50
Covariance contribution -1.86
Combinations/Pair 1.52
Mean z-score -1.10
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.18
SVM RNA-class probability 0.583321
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 2336059 105 + 27905053
-UACAAGUAAACCGGUAAAUCUUAUCGUGUUUAGUAAAUAUCAAUUGCAUUAUACGGCAUAAGUAUAAAGACAAUUGAUAU--AAUGGAGAAUUCAUUUGCUCAAUCG----
-....(.((((((((((.....))))).))))).)..(((((((((((.((((((.......)))))).).))))))))))--....(((((.....)).))).....---- ( -23.30, z-score =  -3.09, R)
>droSec1.super_1989 354 111 - 3922
UGCCCAUUAGGCUGCUGACUUGUCUCUCACUUGUUAACGCACAGGC-CGGCGUGAGAUAAGAAAAUGAUUUCUAUUUUUUCCGAGUUGAAAAUUUAGUUAUUUAUUAAAUGG
...(((((..........((((((((.(.((.(((........)))-.)).).))))))))..(((((...(((..(((((......)))))..)))....))))).))))) ( -23.20, z-score =  -0.45, R)
>droSim1.chr2L 20994878 111 + 22036055
UGCCCAUUAGGCUGGUGACUUGUCUCUCACUUGUUAACGCACAGGC-CGGCGUGAGAUAAAAAAAUGAUUUCUAUUUUUUCCGAGUUGAAAAUUUAGUUAUUUAUUAAAUGG
...(((((.(((.(....)..)))((((((..(....)((......-..))))))))......(((((...(((..(((((......)))))..)))....))))).))))) ( -20.80, z-score =   0.23, R)
>consensus
UGCCCAUUAGGCUGGUGACUUGUCUCUCACUUGUUAACGCACAGGC_CGGCGUGAGAUAAAAAAAUGAUUUCUAUUUUUUCCGAGUUGAAAAUUUAGUUAUUUAUUAAAUGG
...(((((.....(((((((....((((((..(((...((....))..)))))))))..((((((((.....))))))))...............))))))).....))))) (-11.36 =  -9.50 +  -1.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:53:44 2011