Locus 3098

Sequence ID dm3.chr2R
Location 2,421,008 – 2,421,098
Length 90
Max. P 0.934818
window4254

overview

Window 4

Location 2,421,008 – 2,421,098
Length 90
Sequences 4
Columns 90
Reading direction forward
Mean pairwise identity 86.48
Shannon entropy 0.21844
G+C content 0.51370
Mean single sequence MFE -33.05
Consensus MFE -26.48
Energy contribution -28.60
Covariance contribution 2.12
Combinations/Pair 1.08
Mean z-score -2.21
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.39
SVM RNA-class probability 0.934818
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 2421008 90 + 21146708
GCUGGAAAAGCGGGCUGAGAACUUGGCUCGGCGUUUGAGCUGGUGCUUGAGCUCGAGCUAUACUAAACUUUUCCGGCUGCCUCUGCGUUU
(((((((((((((((..(....)..)))))..(((((((((.(....).))))))))).........)))))))))).((....)).... ( -38.40, z-score =  -2.95, R)
>droSim1.chr2R 1246735 90 + 19596830
GCUGGAAAAGCGGGCUGAGAACUUGGCUCGGCGUUUGAGCUGGUGCUUGAGCUCUAUCUAUACUAAACUUUUCCGGCUGCCUCUGCGUUU
(((((((((((((((..(....)..)))))..(((..(((....)))..)))...............)))))))))).((....)).... ( -34.60, z-score =  -2.68, R)
>droSec1.super_1 90812 90 + 14215200
GCUGGAAAAGCGGGCUGAGAACUUGGCUCGGCGUUUGAGCUGGUACUUGAGCUCUAGCUAUACUAAACUUUUCCGGCUGCCUCUGCGUUU
(((((((((((((((..(....)..)))))..(((.(((((.(....).))))).))).........)))))))))).((....)).... ( -34.60, z-score =  -2.39, R)
>droAna3.scaffold_13266 1268619 88 - 19884421
GCCAUAAAG--GGGCGGAAAACUUGGCUCUACAUUUGAGCUGGUGCUUGAGCUCGAGCUAGACUAAACUUUCCAUGUUUCUCUUGCCUUU
(((......--.)))(((((..((((.((((..((((((((.(....).)))))))).))))))))..)))))................. ( -24.60, z-score =  -0.82, R)
>consensus
GCUGGAAAAGCGGGCUGAGAACUUGGCUCGGCGUUUGAGCUGGUGCUUGAGCUCGAGCUAUACUAAACUUUUCCGGCUGCCUCUGCGUUU
(((((((((((((((..(....)..)))))..(((((((((.(....).))))))))).........))))))))))............. (-26.48 = -28.60 +   2.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:03:38 2011