Locus 9575

Sequence ID dm3.chr3R
Location 7,431,898 – 7,431,998
Length 100
Max. P 0.929709
window13141

overview

Window 1

Location 7,431,898 – 7,431,998
Length 100
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 96.33
Shannon entropy 0.05868
G+C content 0.63500
Mean single sequence MFE -44.77
Consensus MFE -43.53
Energy contribution -43.77
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.76
Structure conservation index 0.97
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.35
SVM RNA-class probability 0.929709
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 7431898 100 + 27905053
GCCGUUUUGCUAUUUUACCAUCGGUGGGUCGUGGGACUAGCUACCCACUGAGCGGUGCACGGGUUGCCAGAGGUGGUGCGGGCAUUCGGCGGAGUGGUGC
(((((((((((.....(((.(((((((((.((.......)).)))))))))..)))((.((.(..(((...)))..).)).))....))))))))))).. ( -40.50, z-score =  -0.83, R)
>droSim1.chr3R 13551351 100 - 27517382
GCCGUUUUGCUAUUUUACCAUCGGUGGGUCGUGGGACUUGCGACCCACUGAGCGGUGCACGGGUUGCCAGGGGUGGUGCGGGCCUUCGGCGGAGUGGUGC
(((((((((((.....(((.(((((((((((..(...)..)))))))))))..)))((.((.(..(((...)))..).)).))....))))))))))).. ( -45.80, z-score =  -1.60, R)
>droSec1.super_0 6587615 100 - 21120651
GCCGUUUUGCUAUUUUACCAUCGGUGGGUCGUGGGACUUGCGACCCACUGAGCGGUGCACGGGUUGCCAGGGGUGGUGCGGGCCUUUGGCGGAGUGGUGC
(((((((((((....((((.(((((((((((..(...)..)))))))))))..))))....))).(((((((((.......))))))))))))))))).. ( -46.70, z-score =  -2.12, R)
>droEre2.scaffold_4770 3558048 100 - 17746568
GCCGUUUUGCUAUUUUACCAUCGGUGGGUCGUGGGACUUGCGACCCACUGAGCGGUGCACGGGUUGCGAUGGGUGGUGCGGGCCUUUGGCGGAGUGGUGC
((((((((((((...((((.(((((((((((..(...)..)))))))))))..))))...((.(((((........))))).))..)))))))))))).. ( -46.10, z-score =  -2.48, R)
>consensus
GCCGUUUUGCUAUUUUACCAUCGGUGGGUCGUGGGACUUGCGACCCACUGAGCGGUGCACGGGUUGCCAGGGGUGGUGCGGGCCUUCGGCGGAGUGGUGC
(((((((((((.....(((.((((((((((((.......))))))))))))..)))((.((.(..((.....))..).)).))....))))))))))).. (-43.53 = -43.77 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:07:06 2011