Locus 3822

Sequence ID dm3.chr2R
Location 8,154,387 – 8,154,496
Length 109
Max. P 0.569386
window5240

overview

Window 0

Location 8,154,387 – 8,154,496
Length 109
Sequences 3
Columns 111
Reading direction forward
Mean pairwise identity 92.15
Shannon entropy 0.10755
G+C content 0.33333
Mean single sequence MFE -23.57
Consensus MFE -18.35
Energy contribution -18.47
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.03
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.15
SVM RNA-class probability 0.569386
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 8154387 109 + 21146708
--AAAAAUAGCGUUAUAGAAGUAUAAUUAUAUUAUAUGGCCAUCAUAGGUGAACUCCAAAGGUGGUUUUCUUUAAAUUGCGCUUGCCAAAAAGUCGCAGUUACGCUUUUAG
--...((.(((((((.(((((((((((...)))))))(((((((...((......))...))))))))))).))((((((((((......))).)))))))))))).)).. ( -26.60, z-score =  -2.31, R)
>droSim1.chr2R 6621082 109 + 19596830
AAAAAAAUAACGAUAUAUAAGUAUAAUUAU--UAUAUGCUCAUCAUAGGUGAACUCCAAAGUUGGUUUUCCAUCAAUUGCGCUUGCCAAAAAGUCGCAGUUACGCUUUUAG
...........(((((((((.........)--)))))).))......((((((..(((....)))..)).))))((((((((((......))).))))))).......... ( -19.00, z-score =  -1.12, R)
>droSec1.super_1 5702767 109 + 14215200
AAAAAAAUAACGAUAUAGAAGUAUAAUUAU--UAUAUGGUCAUCAUAGGUGAACUCCAAAGGUGGUUUUCCAUCAAUUGCGCUUGCCAAAAAGUCGCAGUUACGCUUUUAG
...............(((((((........--....(((((((.....))))...)))..(((((....)))))((((((((((......))).)))))))..))))))). ( -25.10, z-score =  -2.68, R)
>consensus
AAAAAAAUAACGAUAUAGAAGUAUAAUUAU__UAUAUGGUCAUCAUAGGUGAACUCCAAAGGUGGUUUUCCAUCAAUUGCGCUUGCCAAAAAGUCGCAGUUACGCUUUUAG
...............(((((((............((((.....))))((.(((((........))))).))...((((((((((......))).)))))))..))))))). (-18.35 = -18.47 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:17:26 2011