Locus 12075

Sequence ID dm3.chr3R
Location 25,495,026 – 25,495,131
Length 105
Max. P 0.856471
window16602

overview

Window 2

Location 25,495,026 – 25,495,131
Length 105
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 76.54
Shannon entropy 0.33178
G+C content 0.39978
Mean single sequence MFE -29.23
Consensus MFE -18.68
Energy contribution -17.47
Covariance contribution -1.22
Combinations/Pair 1.26
Mean z-score -2.04
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.94
SVM RNA-class probability 0.856471
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 25495026 105 - 27905053
CGGCCAUUAUUUUAAGGGGGAUUCUGGCGUAUCUAUAGAUUAAAAAAAAACCGAAUUUCAUGGAUUACUUUUGGAACA---------------CAAGAGAUUAUGCACGGCCAGAGUCAU
...................(((((((((..(((((((((((............))))).))))))..((((((.....---------------))))))..........))))))))).. ( -24.70, z-score =  -1.94, R)
>droSim1.chr3R 25166150 120 - 27517382
CAGCCAUUAUUUUAAGGGGGAUUCUGGCGUAUCUGUAGAUAAAUAAUAUGCCGAAUUUCAAAGAUUACUUUUGGAGUACUUUGGAGUAGUAGGCCGGAGAUUAGGCACGGCCAGAGUCAU
..((((((((((((((((..((((.(((((((.(((......))))))))))))))..)......(((((...))))))))))))))))).)))....((((.(((...)))..)))).. ( -35.40, z-score =  -2.54, R)
>droSec1.super_4 4349827 117 - 6179234
CAGCCAUUAUUUUUAGGGGGAUUUUGGCGGAUCUGUAAAU-AAAAAAAAGUAGAAUUUCAAGAAUUACUUCUGGAUAAA--GGGAGAAGUAGGCCGGAGAUUAGGCACGGCCAAAGUCAG
...((.(((....))).))(((((((((.(..........-.......................((((((((.......--...))))))))(((........))).).))))))))).. ( -27.60, z-score =  -1.64, R)
>consensus
CAGCCAUUAUUUUAAGGGGGAUUCUGGCGUAUCUGUAGAU_AAAAAAAAGCCGAAUUUCAAGGAUUACUUUUGGAAAA____GGAG_AGUAGGCCGGAGAUUAGGCACGGCCAGAGUCAU
...................(((((((((............................((((.(((....))))))).................(((........)))...))))))))).. (-18.68 = -17.47 +  -1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:55:15 2011