Locus 3320

Sequence ID dm3.chr2R
Location 4,362,589 – 4,362,695
Length 106
Max. P 0.783878
window4575

overview

Window 5

Location 4,362,589 – 4,362,695
Length 106
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 89.72
Shannon entropy 0.14355
G+C content 0.59173
Mean single sequence MFE -35.30
Consensus MFE -31.84
Energy contribution -33.07
Covariance contribution 1.23
Combinations/Pair 1.07
Mean z-score -1.55
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.68
SVM RNA-class probability 0.783878
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 4362589 106 - 21146708
CUGUUGACCCAAGCGAUUCCCGGCAUCAGUCUAGGGAUGCGGAAAAGCAGAC-AAGAGGAGGGCAGGAGGUCGUGCUAGGACGGGACUAAAUUGGGAGCAGCUGGGC
.......((((.((..(((((((....(((((.((..(((......)))..)-........((((.(....).))))....).)))))...)))))))..)))))). ( -33.60, z-score =  -0.68, R)
>droSim1.chr2R 3012741 106 - 19596830
CUGUUGACCCAAGCGAUUCCCGGGAUCAGUCUAGGGAUGCGGAAAAGCAGACGGAGGGGA-GGCAGGAGUUCGUGCCAGGACGGGACUAAAUUGGGAGUAGCUGGGC
.......((((.((.((((((((....(((((.((..(((......)))..)........-((((.(....).))))....).)))))...)))))))).)))))). ( -38.30, z-score =  -1.95, R)
>droSec1.super_1 2004510 99 - 14215200
CUGUUGACCCAAGCGAUUCCCGA--------UAGGGAUGCGGAAAAGCAGACGGAGGGGAGGGCAGGAGUUCGUGCCAGGACGGGACUAAAUUGGGAGUAGCUGGGC
.......((((.((.((((((((--------(..(..(((......)))..).........((((.(....).)))).............))))))))).)))))). ( -34.00, z-score =  -2.02, R)
>consensus
CUGUUGACCCAAGCGAUUCCCGG_AUCAGUCUAGGGAUGCGGAAAAGCAGACGGAGGGGAGGGCAGGAGUUCGUGCCAGGACGGGACUAAAUUGGGAGUAGCUGGGC
.......((((.((.((((((((....(((((.((..(((......)))..).........((((.(....).))))....).)))))...)))))))).)))))). (-31.84 = -33.07 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:08:04 2011