Locus 13916

Sequence ID dm3.chrX
Location 9,982,193 – 9,982,313
Length 120
Max. P 0.720180
window19142

overview

Window 2

Location 9,982,193 – 9,982,313
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.82
Shannon entropy 0.08418
G+C content 0.62213
Mean single sequence MFE -49.47
Consensus MFE -45.86
Energy contribution -45.53
Covariance contribution -0.33
Combinations/Pair 1.08
Mean z-score -1.43
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.50
SVM RNA-class probability 0.720180
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 9982193 120 + 22422827
UCUCUCUGCCCCACCCCACCCCUCGCAGUUCUUCCCUUCCAGCCCUACUUCCUCCGCGGAGCGAACAGGUAACGCAGAGGGAAGGGUAGUGGAGGGCAAAGGUGAGAGGUGAGUGGCGAG
...(((....((((..((((.(((((..((...(((((((.(((((..((((((.(((..((......))..))).))))))))))).).)))))).))..))))).)))).)))).))) ( -52.50, z-score =  -1.79, R)
>droSim1.chrX_random 416461 116 + 5698898
----UCUCCCCCUCCCCACCCCUCGCAGUUCUUCCCUUCUAGCCCUACUUCCUCCGCGGAGCGAACAGGUAACGCAGAGGGGAGGGUAGUGGAGGGCAAAGGUGAGAGGUGAGUGGCGAG
----.......(((.(((((((((.((.((...((((((..(((((...(((((.(((..((......))..))).))))).)))))...))))))...)).)).)))).).)))).))) ( -49.90, z-score =  -0.99, R)
>droSec1.super_15 698284 116 + 1954846
----UCUCCCCCUCCCCACCCCUCGCAGUUCUUCCCUUCCAGCCCUACUUCCUCCGCGGAGCGAACAGGUAACGCAGAGAAGAGGGUAGUGGAGGGCAAAGGUGAGAGGUGAGUGGCAAG
----.........(((((((.(((((..((...(((((((.(((((.((((.((.(((..((......))..))).))))))))))).).)))))).))..))))).)))).).)).... ( -46.00, z-score =  -1.52, R)
>consensus
____UCUCCCCCUCCCCACCCCUCGCAGUUCUUCCCUUCCAGCCCUACUUCCUCCGCGGAGCGAACAGGUAACGCAGAGGGGAGGGUAGUGGAGGGCAAAGGUGAGAGGUGAGUGGCGAG
.............(((((((.(((((..((...(((((((.(((((..((((((.(((..((......))..))).))))))))))).).)))))).))..))))).)))).).)).... (-45.86 = -45.53 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:30:10 2011