Locus 10205

Sequence ID dm3.chr3R
Location 12,140,851 – 12,140,924
Length 73
Max. P 0.527345
window14035

overview

Window 5

Location 12,140,851 – 12,140,924
Length 73
Sequences 5
Columns 73
Reading direction reverse
Mean pairwise identity 87.67
Shannon entropy 0.22346
G+C content 0.55560
Mean single sequence MFE -22.46
Consensus MFE -18.22
Energy contribution -18.90
Covariance contribution 0.68
Combinations/Pair 1.11
Mean z-score -1.40
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.07
SVM RNA-class probability 0.527345
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 12140851 73 - 27905053
UGAGCGCGGCAGCAGAGGCGCUAGAAUAGCGCCCUUGACUUGAAGCCUUACGUUCAUUCCCACCUAAAACGAU
((((((.((((((((.(((((((...))))))).))).))....)))...))))))................. ( -23.00, z-score =  -2.20, R)
>droSim1.chr3R 18193340 73 + 27517382
UGAGCGCGGCUGCAGAGGCGCUAGAAUAGCGCCCGUGACUUGAAGCCUUACGUUCAUUCCCACCUGCAACCAU
.......((.(((((.(((((((...))))))).(((...((((........))))....)))))))).)).. ( -24.10, z-score =  -1.74, R)
>droSec1.super_12 116879 73 + 2123299
UGAGCGCGGCUGCAGAGGCGCUAGAAUAGCGCCCGUGACUUGAAGCCUUGCGUUUAUUCCCACCUGCAACGAU
(((((((((((.((..(((((((...)))))))..))......))))..)))))))................. ( -24.70, z-score =  -1.37, R)
>droYak2.chr3R 14555236 73 + 28832112
UGAGCGAGGCUGCAGAGGCGCUAGAUUAGCGCCCAGGACUUGAAGCCUUACGUUCUUUCCCACCUUAAACGAU
.((((((((((.(((.(((((((...)))))))......))).)))))..))))).................. ( -22.60, z-score =  -1.55, R)
>droEre2.scaffold_4770 11665705 68 - 17746568
UGAGCGCGGCUGCAAAGGCGCUAGAAUAGCGCCCGGGACUUGAAGCC-----ACCAUUCCCACCUAAAAUGAU
...(((....)))...(((((((...))))))).((((..((.....-----..)).))))............ ( -17.90, z-score =  -0.14, R)
>consensus
UGAGCGCGGCUGCAGAGGCGCUAGAAUAGCGCCCGUGACUUGAAGCCUUACGUUCAUUCCCACCUAAAACGAU
.(((((.((((.(((.(((((((...)))))))......))).))))...))))).................. (-18.22 = -18.90 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:19:30 2011