Locus 8673

Sequence ID dm3.chr3R
Location 622,439 – 622,530
Length 91
Max. P 0.929353
window11905 window11906

overview

Window 5

Location 622,439 – 622,530
Length 91
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 97.80
Shannon entropy 0.03967
G+C content 0.55385
Mean single sequence MFE -35.82
Consensus MFE -34.74
Energy contribution -35.18
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -1.47
Structure conservation index 0.97
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.83
SVM RNA-class probability 0.829473
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 622439 91 + 27905053
CUGUUGCUGAUGACGCACGGCAACUACAACGGUAUUGCCGCCCACCUGUUGGUAUUGAUAGGUACCAGGCGGUGGCAGCAAUUGCUGCUGU
..(((((((........))))))).(((.(((((((((.(((.(((..((((((((....))))))))..)))))).)))).))))).))) ( -37.10, z-score =  -1.98, R)
>droSim1.chr3R 665486 91 + 27517382
CUGUUGCUGAUGACGCACGGCAACUACAACGGUAUUGCCGCCCACCUGUUGGUAUUGAUAGGUACCAGGCGGUGGCAGCAAUUGCUGCUGU
..(((((((........))))))).(((.(((((((((.(((.(((..((((((((....))))))))..)))))).)))).))))).))) ( -37.10, z-score =  -1.98, R)
>droSec1.super_6 722473 91 + 4358794
CUGUUGCUGAUGACGCACGGCAACUACAACGGUAUUGCCGCCCACCUGUUGGUAUUGAUAGGUACCAGGCGGUGGCAGCAAUUGCUGCUGU
..(((((((........))))))).(((.(((((((((.(((.(((..((((((((....))))))))..)))))).)))).))))).))) ( -37.10, z-score =  -1.98, R)
>droYak2.chr3R 941070 91 + 28832112
CUGUUGCUGAUGACGCACGGCAACUACAACGGUAUUGCCGCCCACCUGUUGAUAUUGGUAGGUACCAGGCGGUGGCAGCAAUUGCGCCUGU
..(((((((........)))))))............((((((.(((((..(....)..)))))....))))))(((.((....)))))... ( -30.70, z-score =   0.12, R)
>droEre2.scaffold_4770 930428 91 + 17746568
CUGUUGCUGAUGACGCACGGCAACUACAACGGUAUUGCCGCCCACCUGUUGGUAUUGAUAGGUACCAGGCGGUGGCAGCAGUUGCUGCUGU
..(((((((........))))))).(((.(((((((((.(((.(((..((((((((....))))))))..)))))).)))).))))).))) ( -37.10, z-score =  -1.55, R)
>consensus
CUGUUGCUGAUGACGCACGGCAACUACAACGGUAUUGCCGCCCACCUGUUGGUAUUGAUAGGUACCAGGCGGUGGCAGCAAUUGCUGCUGU
..(((((((........))))))).(((.(((((((((.(((.(((..((((((((....))))))))..)))))).)))).))))).))) (-34.74 = -35.18 +   0.44)

alignment

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secondary structure

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dotplot

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Window 6

Location 622,439 – 622,530
Length 91
Sequences 5
Columns 91
Reading direction reverse
Mean pairwise identity 97.80
Shannon entropy 0.03967
G+C content 0.55385
Mean single sequence MFE -33.59
Consensus MFE -31.80
Energy contribution -32.04
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.96
Structure conservation index 0.95
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.35
SVM RNA-class probability 0.929353
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 622439 91 - 27905053
ACAGCAGCAAUUGCUGCCACCGCCUGGUACCUAUCAAUACCAACAGGUGGGCGGCAAUACCGUUGUAGUUGCCGUGCGUCAUCAGCAACAG
...(((((.((((((((((((...(((((........)))))...))).)))))))))...))))).(((((.(........).))))).. ( -34.10, z-score =  -2.26, R)
>droSim1.chr3R 665486 91 - 27517382
ACAGCAGCAAUUGCUGCCACCGCCUGGUACCUAUCAAUACCAACAGGUGGGCGGCAAUACCGUUGUAGUUGCCGUGCGUCAUCAGCAACAG
...(((((.((((((((((((...(((((........)))))...))).)))))))))...))))).(((((.(........).))))).. ( -34.10, z-score =  -2.26, R)
>droSec1.super_6 722473 91 - 4358794
ACAGCAGCAAUUGCUGCCACCGCCUGGUACCUAUCAAUACCAACAGGUGGGCGGCAAUACCGUUGUAGUUGCCGUGCGUCAUCAGCAACAG
...(((((.((((((((((((...(((((........)))))...))).)))))))))...))))).(((((.(........).))))).. ( -34.10, z-score =  -2.26, R)
>droYak2.chr3R 941070 91 - 28832112
ACAGGCGCAAUUGCUGCCACCGCCUGGUACCUACCAAUAUCAACAGGUGGGCGGCAAUACCGUUGUAGUUGCCGUGCGUCAUCAGCAACAG
...(((((...........(((((((.................)))))))((((((((((....)).)))))))))))))........... ( -31.83, z-score =  -1.08, R)
>droEre2.scaffold_4770 930428 91 - 17746568
ACAGCAGCAACUGCUGCCACCGCCUGGUACCUAUCAAUACCAACAGGUGGGCGGCAAUACCGUUGUAGUUGCCGUGCGUCAUCAGCAACAG
.((((((...))))))(((((...(((((........)))))...)))))((((((((((....)).))))))))((.......))..... ( -33.80, z-score =  -1.94, R)
>consensus
ACAGCAGCAAUUGCUGCCACCGCCUGGUACCUAUCAAUACCAACAGGUGGGCGGCAAUACCGUUGUAGUUGCCGUGCGUCAUCAGCAACAG
(((((.(..((((((((((((...(((((........)))))...))).))))))))).).))))).(((((.(........).))))).. (-31.80 = -32.04 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:49:58 2011