Locus 15059

Sequence ID dm3.chrX
Location 17,213,165 – 17,213,259
Length 94
Max. P 0.580098
window20752 window20753

overview

Window 2

Location 17,213,165 – 17,213,258
Length 93
Sequences 4
Columns 93
Reading direction reverse
Mean pairwise identity 97.31
Shannon entropy 0.04362
G+C content 0.42859
Mean single sequence MFE -26.75
Consensus MFE -25.31
Energy contribution -25.38
Covariance contribution 0.06
Combinations/Pair 1.03
Mean z-score -1.17
Structure conservation index 0.95
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.11
SVM RNA-class probability 0.546143
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17213165 93 - 22422827
AGAAAACGUUGCAAGUGCAGCAGCAACAUGAGAAGCGAGUGGUCUUACAUAACGGUGGUUAGCUUUUCGUGUUACCUGCAUUAUAAUUUGUAA
........((((((((...((((.(((((((((((((((....)))...((((....))))))))))))))))..))))......)))))))) ( -27.00, z-score =  -1.68, R)
>droEre2.scaffold_4690 7553294 93 - 18748788
AGAAAGCGUUGCAAGUGCAGCAGCAACAUGAGAAGCGAGUGGGCUUACAUAACGGUGGUUGGCUUUUCGUGUUACCAGCAUUAUAAUUUGUAA
.....(((((((....)))))...(((((((((((((((....)))...((((....))))))))))))))))....)).............. ( -26.90, z-score =  -1.04, R)
>droSec1.super_17 1059538 92 - 1527944
AGAAAACGUUGCAAGUGCAGCAGC-ACAUGAGAAGCGAGUGGGCUUACAUAACGGUGGUUGGCUUUUCGUGUUACCUGCAUUAUAAUUUGUAA
........((((((((...((((.-((((((((((((((....)))...((((....)))))))))))))))...))))......)))))))) ( -25.90, z-score =  -0.77, R)
>droSim1.chrX 3343766 93 + 17042790
AGAAAACGUUGCAAGUGCAGCAGCAACAUGAGAAGCGAGUGGGCUUACAUAACGGUGGUUGGCUUUUCGUGUUACCUGCAUUAUAAUUUGUAA
........((((((((...((((.(((((((((((((((....)))...((((....))))))))))))))))..))))......)))))))) ( -27.20, z-score =  -1.20, R)
>consensus
AGAAAACGUUGCAAGUGCAGCAGCAACAUGAGAAGCGAGUGGGCUUACAUAACGGUGGUUGGCUUUUCGUGUUACCUGCAUUAUAAUUUGUAA
........((((((((...((((..((((((((((((((....)))...((((....)))))))))))))))...))))......)))))))) (-25.31 = -25.38 +   0.06)

alignment

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secondary structure

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dotplot

Postscript

Window 3

Location 17,213,165 – 17,213,259
Length 94
Sequences 4
Columns 94
Reading direction reverse
Mean pairwise identity 96.81
Shannon entropy 0.05178
G+C content 0.42668
Mean single sequence MFE -26.75
Consensus MFE -25.31
Energy contribution -25.38
Covariance contribution 0.06
Combinations/Pair 1.03
Mean z-score -1.19
Structure conservation index 0.95
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.18
SVM RNA-class probability 0.580098
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17213165 94 - 22422827
AAGAAAACGUUGCAAGUGCAGCAGCAACAUGAGAAGCGAGUGGUCUUACAUAACGGUGGUUAGCUUUUCGUGUUACCUGCAUUAUAAUUUGUAA
.........((((((((...((((.(((((((((((((((....)))...((((....))))))))))))))))..))))......)))))))) ( -27.00, z-score =  -1.72, R)
>droEre2.scaffold_4690 7553294 94 - 18748788
CAGAAAGCGUUGCAAGUGCAGCAGCAACAUGAGAAGCGAGUGGGCUUACAUAACGGUGGUUGGCUUUUCGUGUUACCAGCAUUAUAAUUUGUAA
......(((((((....)))))...(((((((((((((((....)))...((((....))))))))))))))))....)).............. ( -26.90, z-score =  -1.02, R)
>droSec1.super_17 1059538 93 - 1527944
AAGAAAACGUUGCAAGUGCAGCAGC-ACAUGAGAAGCGAGUGGGCUUACAUAACGGUGGUUGGCUUUUCGUGUUACCUGCAUUAUAAUUUGUAA
.........((((((((...((((.-((((((((((((((....)))...((((....)))))))))))))))...))))......)))))))) ( -25.90, z-score =  -0.75, R)
>droSim1.chrX 3343766 94 + 17042790
AAGAAAACGUUGCAAGUGCAGCAGCAACAUGAGAAGCGAGUGGGCUUACAUAACGGUGGUUGGCUUUUCGUGUUACCUGCAUUAUAAUUUGUAA
.........((((((((...((((.(((((((((((((((....)))...((((....))))))))))))))))..))))......)))))))) ( -27.20, z-score =  -1.26, R)
>consensus
AAGAAAACGUUGCAAGUGCAGCAGCAACAUGAGAAGCGAGUGGGCUUACAUAACGGUGGUUGGCUUUUCGUGUUACCUGCAUUAUAAUUUGUAA
.........((((((((...((((..((((((((((((((....)))...((((....)))))))))))))))...))))......)))))))) (-25.31 = -25.38 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:52:14 2011