Locus 10492

Sequence ID dm3.chr3R
Location 14,149,475 – 14,149,581
Length 106
Max. P 0.987366
window14432 window14433

overview

Window 2

Location 14,149,475 – 14,149,581
Length 106
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 89.78
Shannon entropy 0.13861
G+C content 0.42219
Mean single sequence MFE -24.33
Consensus MFE -20.77
Energy contribution -21.77
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.03
Structure conservation index 0.85
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.99
SVM RNA-class probability 0.869870
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14149475 106 + 27905053
UAUCGCAAGCACUUUUCUUUCUGGAACAAACCCCAAAGGAACAAAUUUUUUUUUUUAGCAAAAAGUCGAGCUGCCAACACAGCAUCAGCAGCAUCAGCAGCGUCAA
...(((..((....((((((.(((........)))))))))..........................((((((......)))).)).)).((....)).))).... ( -19.10, z-score =  -0.62, R)
>droSec1.super_5 119236 101 - 5866729
UAUCGCAGGUACUUUACUUUCUGGGACAAAUCCCAAAGGAAUAAAUCUUUUUU---AGCAAAAAGUCGAGCUGCCAACACAAC--UGGCAGCAUCAGCAGCGUCAA
...(((..(.(((((.((((.(((((....)))))))))..((((.....)))---)....))))))(((((((((.......--))))))).))....))).... ( -26.90, z-score =  -2.73, R)
>droSim1.chr3R 20189395 101 - 27517382
UAUCGCAGGUACUUUACUUUCUGGGACAAUUCCCAAAGGAAUAAAUCUUUUUU---AGCAAAAAGUCGAGCUGCCAACACAAC--UGGCAGCAUCAGCAGCGUCAA
...(((..(.(((((.((((.(((((....)))))))))..((((.....)))---)....))))))(((((((((.......--))))))).))....))).... ( -27.00, z-score =  -2.72, R)
>consensus
UAUCGCAGGUACUUUACUUUCUGGGACAAAUCCCAAAGGAAUAAAUCUUUUUU___AGCAAAAAGUCGAGCUGCCAACACAAC__UGGCAGCAUCAGCAGCGUCAA
...(((..........((((.((((......)))))))).........................((.(((((((((.........))))))).)).)).))).... (-20.77 = -21.77 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 14,149,475 – 14,149,581
Length 106
Sequences 3
Columns 106
Reading direction reverse
Mean pairwise identity 89.78
Shannon entropy 0.13861
G+C content 0.42219
Mean single sequence MFE -30.07
Consensus MFE -28.69
Energy contribution -28.70
Covariance contribution 0.01
Combinations/Pair 1.09
Mean z-score -2.37
Structure conservation index 0.95
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.27
SVM RNA-class probability 0.987366
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14149475 106 - 27905053
UUGACGCUGCUGAUGCUGCUGAUGCUGUGUUGGCAGCUCGACUUUUUGCUAAAAAAAAAAAUUUGUUCCUUUGGGGUUUGUUCCAGAAAGAAAAGUGCUUGCGAUA
((((.(((((..((((.((....)).))))..)))))))))....((((....................(((((((....)))))))(((.......))))))).. ( -27.30, z-score =  -1.06, R)
>droSec1.super_5 119236 101 + 5866729
UUGACGCUGCUGAUGCUGCCA--GUUGUGUUGGCAGCUCGACUUUUUGCU---AAAAAAGAUUUAUUCCUUUGGGAUUUGUCCCAGAAAGUAAAGUACCUGCGAUA
....(((((((((.(((((((--(.....))))))))))..((((((...---.))))))..(((((..(((((((....))))))).)))))))))...)))... ( -31.60, z-score =  -3.06, R)
>droSim1.chr3R 20189395 101 + 27517382
UUGACGCUGCUGAUGCUGCCA--GUUGUGUUGGCAGCUCGACUUUUUGCU---AAAAAAGAUUUAUUCCUUUGGGAAUUGUCCCAGAAAGUAAAGUACCUGCGAUA
....(((((((((.(((((((--(.....))))))))))..((((((...---.))))))..(((((..(((((((....))))))).)))))))))...)))... ( -31.30, z-score =  -3.00, R)
>consensus
UUGACGCUGCUGAUGCUGCCA__GUUGUGUUGGCAGCUCGACUUUUUGCU___AAAAAAGAUUUAUUCCUUUGGGAUUUGUCCCAGAAAGUAAAGUACCUGCGAUA
((((.(((((..((((.((....)).))))..)))))))))((((((.......)))))).((((((..(((((((....))))))).))))))............ (-28.69 = -28.70 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:25:02 2011