Locus 4677

Sequence ID dm3.chr2R
Location 14,975,812 – 14,975,881
Length 69
Max. P 0.665056
window6423

overview

Window 3

Location 14,975,812 – 14,975,881
Length 69
Sequences 5
Columns 69
Reading direction forward
Mean pairwise identity 92.92
Shannon entropy 0.12555
G+C content 0.45702
Mean single sequence MFE -16.26
Consensus MFE -16.06
Energy contribution -15.30
Covariance contribution -0.76
Combinations/Pair 1.25
Mean z-score -0.85
Structure conservation index 0.99
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.37
SVM RNA-class probability 0.665056
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 14975812 69 + 21146708
GAAAGAGGAUUAGGUGGAAAACUUGCCAUUUGAGAGCGAGAAUAGCAGGAGAGCAGCAGCGUUUUCUUU
.........((((((((........))))))))..((.......))((((((((......)))))))). ( -14.20, z-score =  -0.27, R)
>droEre2.scaffold_4845 9173777 67 + 22589142
GAAAGAGCAUUAGGUGGAAAACUUGCCAUUCGAGAGCGGGAAUAGCAGGAG--CAGCAGCGUGUUCUUU
.(((((((((...........(((((.((((........)))).))))).(--(....))))))))))) ( -18.40, z-score =  -1.32, R)
>droYak2.chr2R 6933273 67 - 21139217
GAAAGAGCAUUAGGUGGAAAACUUGCCAUUUGCGAGCGAGAAUAGCUGGAG--CAGCAGCGUGUUCUUU
.(((((((((...........((((((......).)))))....((((...--...))))))))))))) ( -19.00, z-score =  -0.88, R)
>droSec1.super_1 12481889 67 + 14215200
GAAAGAGCAUUAGGUGGAAAACUUGCCAUUUGAGAGCGAGAAUAGCAGGAG--CAGCAGCGUGUUUUUU
.(((((((((...........(((((.((((........)))).))))).(--(....))))))))))) ( -13.90, z-score =  -0.32, R)
>droSim1.chr2R 13676992 67 + 19596830
GAAAGAGCAUUAGGUGGAAAACUUGCCAUUUGAGAGCGAGAAUAGUAGGAG--CAGCAUCAUGUUCUUU
.(((((((((..((((.....((((((......).)))))....((....)--)..))))))))))))) ( -15.80, z-score =  -1.45, R)
>consensus
GAAAGAGCAUUAGGUGGAAAACUUGCCAUUUGAGAGCGAGAAUAGCAGGAG__CAGCAGCGUGUUCUUU
.(((((((((...((......(((((.((((........)))).)))))......))...))))))))) (-16.06 = -15.30 +  -0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:33:54 2011