Locus 5839

Sequence ID dm3.chr3L
Location 1,677,955 – 1,678,045
Length 90
Max. P 0.672047
window8034

overview

Window 4

Location 1,677,955 – 1,678,045
Length 90
Sequences 4
Columns 106
Reading direction reverse
Mean pairwise identity 85.33
Shannon entropy 0.22436
G+C content 0.58710
Mean single sequence MFE -39.15
Consensus MFE -28.34
Energy contribution -29.77
Covariance contribution 1.44
Combinations/Pair 1.07
Mean z-score -1.95
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.39
SVM RNA-class probability 0.672047
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3L 1677955 90 - 24543557
GCUGUGUGUGCGAUCGCGAUCAUAUCGGAUACACUG------------GGAUUGGGAUUGGUACUGGGAU----AUCGGGAUAGCUUUGUGAUCGCUGCGCGGCCG
((((((((.((((((((((...((((.((((..(..------------(.(((......))).)..)..)----)))..))))...)))))))))))))))))).. ( -36.60, z-score =  -2.91, R)
>droSim1.chr3L 1238973 94 - 22553184
GCUGUGUGUGCGAUCGCGAUCAUAUCGGAUCCACUG------------GGACUCGGAUUGGGACAGGGAUCGGGAUCGGGAUAGCUUUGUGAUCGCUGAGCGGCCG
(((((....((((((((((...((((.(((((.(((------------...(((.....))).))))))))(....)..))))...))))))))))...))))).. ( -36.90, z-score =  -1.30, R)
>droSec1.super_2 1704405 94 - 7591821
GCUGUGUGUGCGAUCGCGAUCAUAUCGGAUCCACUG------------GGAUUCGGAUUGGGACAGGGAUCUGGAUCGGGAUAGCUUUGUGAUCGCUGAGCGGCCG
(((((....((((((((((...((((((((((....------------)))))).((((.(((......))).))))..))))...))))))))))...))))).. ( -40.70, z-score =  -2.72, R)
>droYak2.chr3L 1629035 106 - 24197627
GCUGUGUGUGCGAUCGCGAUCAUAUCGCAUCCACUGGGAUGGGGACAUGGAUCGGGAACGGGACUGGGAUCGGGAUCGGGAUAGCUCUGUGAUCGCCGAGCGGCCG
(((((.((.((((((((((((..(((.(((((.((((.(((....)))...)))).....))).)).)))...))))(((....))).)))))))))).))))).. ( -42.40, z-score =  -0.84, R)
>consensus
GCUGUGUGUGCGAUCGCGAUCAUAUCGGAUCCACUG____________GGAUUCGGAUUGGGACAGGGAUCGGGAUCGGGAUAGCUUUGUGAUCGCUGAGCGGCCG
(((((....((((((((((...(((((....).................(((((.((((........)))).)))))..))))...))))))))))...))))).. (-28.34 = -29.77 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:56:12 2011