Locus 9897

Sequence ID dm3.chr3R
Location 9,700,299 – 9,700,367
Length 68
Max. P 0.902455
window13598

overview

Window 8

Location 9,700,299 – 9,700,367
Length 68
Sequences 5
Columns 68
Reading direction forward
Mean pairwise identity 97.65
Shannon entropy 0.04247
G+C content 0.41471
Mean single sequence MFE -16.30
Consensus MFE -16.46
Energy contribution -16.30
Covariance contribution -0.16
Combinations/Pair 1.06
Mean z-score -1.37
Structure conservation index 1.01
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.16
SVM RNA-class probability 0.902455
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 9700299 68 + 27905053
CAGAUAAGCACACACGCACUGUUUUUCCGAUCAGAUAGCUAUAGCUAUAUAGCUACGUAGCGUUGUAU
.........(((.((((.(((..........))).((((((((....))))))))....))))))).. ( -16.40, z-score =  -1.46, R)
>droEre2.scaffold_4770 5814907 68 - 17746568
UUGAUAAGCACACACGCACUGUUUUUCCGAUCAGAUAGCUAUGGCCAUAUAGCUACGUAGCGUUGUAU
.........(((.((((.(((..........))).((((((((....))))))))....))))))).. ( -15.90, z-score =  -1.00, R)
>droYak2.chr3R 14013917 68 + 28832112
CAGAUAAGCACACACGCACUGUUUUUCCGAUCAGAUAGCUAUAGCUAUAUAGCUACGUAGCGUUGUAU
.........(((.((((.(((..........))).((((((((....))))))))....))))))).. ( -16.40, z-score =  -1.46, R)
>droSec1.super_0 8811754 68 - 21120651
CAGAUAAGCACACACGCACUGUUUUUCCGAUCAGAUAGCUAUAGCUAUAUAGCUACGUAGCGUUGUAU
.........(((.((((.(((..........))).((((((((....))))))))....))))))).. ( -16.40, z-score =  -1.46, R)
>droSim1.chr3R 15789927 68 - 27517382
CAGAUAAGCACACACGCACUGUUUUUCCGAUCAGAUAGCUAUAGCUAUAUAGCUACGUAGCGUUGUAU
.........(((.((((.(((..........))).((((((((....))))))))....))))))).. ( -16.40, z-score =  -1.46, R)
>consensus
CAGAUAAGCACACACGCACUGUUUUUCCGAUCAGAUAGCUAUAGCUAUAUAGCUACGUAGCGUUGUAU
.........(((.((((.(((..........))).((((((((....))))))))....))))))).. (-16.46 = -16.30 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:13:28 2011