Locus 9636

Sequence ID dm3.chr3R
Location 7,903,709 – 7,903,829
Length 120
Max. P 0.938826
window13216

overview

Window 6

Location 7,903,709 – 7,903,829
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.39
Shannon entropy 0.05147
G+C content 0.34444
Mean single sequence MFE -22.17
Consensus MFE -21.97
Energy contribution -21.87
Covariance contribution -0.11
Combinations/Pair 1.06
Mean z-score -1.70
Structure conservation index 0.99
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.45
SVM RNA-class probability 0.938826
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 7903709 120 + 27905053
UAAACACAGUUUACCCUUUAAGCCCACAAUUUAUAUCAAUAAAAUUUUUGAUUGGCUUCCAAAAAGCAUUGUAGGUUGUCCUAAACUGGCUGAUGCCCCGUCAUUCCUUUUUUGUUCUCC
..(((((((((((.......((((.(((((....(((((........)))))..((((.....))))))))).))))....)))))))..(((((...))))).........)))).... ( -20.80, z-score =  -1.17, R)
>droSec1.super_0 7048350 120 - 21120651
UAAAUACAGUUUACCCUUUAAGUCUACAAUUUAUAUCAAUAAAAAUUUUGAUUGGCUUCCAAAAAGCAUUGUAGGUUGUUCUAAACUGGCUGAUGCCCCAUCAUUCCUUUUUUGUUCUCC
......(((((((.......(..(((((((....(((((........)))))..((((.....)))))))))))..)....)))))))..(((((...)))))................. ( -20.70, z-score =  -1.43, R)
>droSim1.chr3R 14028528 120 - 27517382
UAAAUACAGUUUACCCUUUAAGCCUACAAUUUAUAUCAAUAAAAGUUUUGAUUGGCUUCCAAAAAGCAUUGUAGGUUGUUCUAAACUGGCUGAUGCCCCAUCAUUCCUUUUUUGUUCUCC
......(((((((.......((((((((((....(((((........)))))..((((.....))))))))))))))....)))))))..(((((...)))))................. ( -25.00, z-score =  -2.49, R)
>consensus
UAAAUACAGUUUACCCUUUAAGCCUACAAUUUAUAUCAAUAAAAAUUUUGAUUGGCUUCCAAAAAGCAUUGUAGGUUGUUCUAAACUGGCUGAUGCCCCAUCAUUCCUUUUUUGUUCUCC
......(((((((.......((((((((((....(((((........)))))..((((.....))))))))))))))....)))))))..(((((...)))))................. (-21.97 = -21.87 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:08:09 2011