Locus 4292

Sequence ID dm3.chr2R
Location 11,982,482 – 11,982,579
Length 97
Max. P 0.967989
window5882 window5883

overview

Window 2

Location 11,982,482 – 11,982,575
Length 93
Sequences 3
Columns 93
Reading direction reverse
Mean pairwise identity 92.83
Shannon entropy 0.09874
G+C content 0.46237
Mean single sequence MFE -30.03
Consensus MFE -27.05
Energy contribution -26.50
Covariance contribution -0.55
Combinations/Pair 1.13
Mean z-score -1.92
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.06
SVM RNA-class probability 0.883418
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 11982482 93 - 21146708
AGUAGUUUGUAUUGGUCAUAAAAGAGUUUCAAUUUCAAUUUUUUGGCCAGUGUGGUGCAAAGUACUGGGGAGUGGAGCAAUGCCCCCAACCUG
((((.(((((((((((((.(((((((.......)))..)))).)))))).....))))))).))))((((.(((......)))))))...... ( -26.40, z-score =  -1.36, R)
>droSec1.super_1 9478156 93 - 14215200
GCUAGUUUAUAUUGGCCAUAAAAGAAGUUCGACUUCAACUUUUUGGCCAGUGUGGUGCAAAGUACUGGGGAGUGGAGCAAUGCCCCCAACCUG
((....((((((((((((.(((.((((.....))))...))).)))))))))))).)).......(((((.(((......))))))))..... ( -30.80, z-score =  -1.94, R)
>droSim1.chr2R 10717940 93 - 19596830
GCUAGUUCAUAUUGGCCAUAAAAGAAGUUCGACUUCAACUUUUUGGCCAGUGUGGUGCAAAGUACUGGGGAGUGGAGCAAUGCCCCCAACCUG
((....((((((((((((.(((.((((.....))))...))).)))))))))))).)).......(((((.(((......))))))))..... ( -32.90, z-score =  -2.45, R)
>consensus
GCUAGUUUAUAUUGGCCAUAAAAGAAGUUCGACUUCAACUUUUUGGCCAGUGUGGUGCAAAGUACUGGGGAGUGGAGCAAUGCCCCCAACCUG
.......(((((((((((.(((.((((.....))))...))).)))))))))))((((...))))(((((.(((......))))))))..... (-27.05 = -26.50 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 11,982,486 – 11,982,579
Length 93
Sequences 3
Columns 93
Reading direction reverse
Mean pairwise identity 92.11
Shannon entropy 0.10862
G+C content 0.43369
Mean single sequence MFE -30.27
Consensus MFE -27.05
Energy contribution -26.50
Covariance contribution -0.55
Combinations/Pair 1.13
Mean z-score -2.44
Structure conservation index 0.89
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.79
SVM RNA-class probability 0.967989
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 11982486 93 - 21146708
GUAAAGUAGUUUGUAUUGGUCAUAAAAGAGUUUCAAUUUCAAUUUUUUGGCCAGUGUGGUGCAAAGUACUGGGGAGUGGAGCAAUGCCCCCAA
....((((.(((((((((((((.(((((((.......)))..)))).)))))).....))))))).))))((((.(((......))))))).. ( -26.70, z-score =  -2.17, R)
>droSec1.super_1 9478160 93 - 14215200
AUAAGCUAGUUUAUAUUGGCCAUAAAAGAAGUUCGACUUCAACUUUUUGGCCAGUGUGGUGCAAAGUACUGGGGAGUGGAGCAAUGCCCCCAA
....((....((((((((((((.(((.((((.....))))...))).)))))))))))).)).......(((((.(((......)))))))). ( -31.00, z-score =  -2.30, R)
>droSim1.chr2R 10717944 93 - 19596830
AUAAGCUAGUUCAUAUUGGCCAUAAAAGAAGUUCGACUUCAACUUUUUGGCCAGUGUGGUGCAAAGUACUGGGGAGUGGAGCAAUGCCCCCAA
....((....((((((((((((.(((.((((.....))))...))).)))))))))))).)).......(((((.(((......)))))))). ( -33.10, z-score =  -2.85, R)
>consensus
AUAAGCUAGUUUAUAUUGGCCAUAAAAGAAGUUCGACUUCAACUUUUUGGCCAGUGUGGUGCAAAGUACUGGGGAGUGGAGCAAUGCCCCCAA
...........(((((((((((.(((.((((.....))))...))).)))))))))))((((...))))(((((.(((......)))))))). (-27.05 = -26.50 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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