Locus 5330

Sequence ID dm3.chr2R
Location 19,539,720 – 19,539,811
Length 91
Max. P 0.566267
window7307

overview

Window 7

Location 19,539,720 – 19,539,811
Length 91
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 80.14
Shannon entropy 0.30841
G+C content 0.36815
Mean single sequence MFE -21.90
Consensus MFE -16.95
Energy contribution -17.95
Covariance contribution 1.00
Combinations/Pair 1.15
Mean z-score -1.27
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.15
SVM RNA-class probability 0.566267
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 19539720 91 + 21146708
-------AUUUCGCAAUUGCCAAAUGCUUACAGUGGCAACCAGUUUAAUUGAACGCACUCCAACUGGUUUUUGCUUU-GGCAGAUUCAUAAUGUUGAAA--
-------.........((((((((((((......))))(((((((....((....))....)))))))......)))-))))).((((......)))).-- ( -21.60, z-score =  -0.94, R)
>droYak2.chr2R 19515800 90 + 21139217
-------AAUUGUUUAUUGCCAAAUGUUUUCAUUAGCAACCAGUUUGAUUGAACGCACUCUAACUGGUUUAUGCCUAUGG----UUCAUUGAGUUCAGAAG
-------.....(((...((..((((...((((..((((((((((.((.((....)).)).)))))))...)))..))))----..))))..))...))). ( -19.20, z-score =  -1.21, R)
>droSec1.super_9 2819224 99 + 3197100
AUUUCCCAAUUUGCACUUGCCAAGUGUUUUCAGUGGCAACCAGUUUGAUUGAACGCACUCUAACUGGUUUUUGUUUUUGGCAGAUUCAUUAAGUUGAAA--
.(((.((((...(((...((((..((....)).))))((((((((.((.((....)).)).))))))))..)))..)))).)))((((......)))).-- ( -24.30, z-score =  -1.32, R)
>droSim1.chr2R 18110631 92 + 19596830
-------AUUUCCCAAUUGCCAAAUGUUUUCAGUGGCAACCAGUUUGAUUGAACGCACUCUAACUGGUUUUUGUUUUUGGCAGAUUCAUAAAGUUGAAA--
-------.........((((((((.......((..(.((((((((.((.((....)).)).)))))))).)..)))))))))).((((......)))).-- ( -22.51, z-score =  -1.62, R)
>consensus
_______AAUUCGCAAUUGCCAAAUGUUUUCAGUGGCAACCAGUUUGAUUGAACGCACUCUAACUGGUUUUUGCUUUUGGCAGAUUCAUAAAGUUGAAA__
................((((((((((((......))))(((((((.((.((....)).)).))))))).......)))))))).((((......))))... (-16.95 = -17.95 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:46:10 2011