Locus 8460

Sequence ID dm3.chr3L
Location 22,933,355 – 22,933,445
Length 90
Max. P 0.915793
window11619

overview

Window 9

Location 22,933,355 – 22,933,445
Length 90
Sequences 4
Columns 90
Reading direction reverse
Mean pairwise identity 67.29
Shannon entropy 0.53143
G+C content 0.31668
Mean single sequence MFE -17.57
Consensus MFE -8.84
Energy contribution -9.09
Covariance contribution 0.25
Combinations/Pair 1.50
Mean z-score -1.72
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.25
SVM RNA-class probability 0.915793
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 22933355 90 - 24543557
UCACUGCGAAAGACAGUUUCUAUUUAUUAAAAUAAUAGAGAAACAACGGAAGUGUGUUUCGCGAAUUCUUUCAAUAUGUUUUAAAACAAA
.....((((((.((.((((((..((((....))))...)))))).((....)))).))))))(((....)))....((((....)))).. ( -21.50, z-score =  -3.18, R)
>droSim1.chr3L 22211025 88 - 22553184
UCACUGCGGAAGACAGUUUCUAAUUACUGAUAUGAUAGGGAGA-AACGGAAGUGUGUUCCGCGAAUAUUUUCAAUAUGAUUUAGAAAAA-
(((..((((((.(((((((((..((((......).)))..)))-))).....))).))))))(((....)))....)))..........- ( -20.30, z-score =  -1.97, R)
>droSec1.super_11 2835502 88 - 2888827
UCACUGCGGAAGACAGUUUCUAUUUACUGAUAUGAUAGGGAGA-AACGGAAGUGUGUUCCGCGAAUACUUUCAAUAUGUUUUAGAAAAA-
.....((((((.((..(..(((((.........)))))..)..-.((....)))).))))))(((....))).................- ( -21.10, z-score =  -1.83, R)
>droAna3.scaffold_13260 1746862 84 - 2125536
UUGUUGAAAAUGGAAAUUUCCAUUCUUUUUACUUAAAAACAAAAUGCGACGGC-UAUU-----AAUUCUUUCAUAAUUCCUCAAAUCAUU
(((..(((((((((....)))))).....................((....))-....-----.............)))..)))...... (  -7.40, z-score =   0.10, R)
>consensus
UCACUGCGAAAGACAGUUUCUAUUUACUGAAAUGAUAGAGAAA_AACGGAAGUGUGUUCCGCGAAUACUUUCAAUAUGUUUUAAAAAAA_
.....((((((.(((.((((......(((......))).........)))).))).))))))............................ ( -8.84 =  -9.09 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:46:01 2011