Locus 10777

Sequence ID dm3.chr3R
Location 16,379,976 – 16,380,126
Length 150
Max. P 0.991504
window14806 window14807

overview

Window 6

Location 16,379,976 – 16,380,071
Length 95
Sequences 3
Columns 95
Reading direction forward
Mean pairwise identity 95.09
Shannon entropy 0.06766
G+C content 0.40000
Mean single sequence MFE -22.97
Consensus MFE -22.18
Energy contribution -22.07
Covariance contribution -0.11
Combinations/Pair 1.04
Mean z-score -2.63
Structure conservation index 0.97
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.48
SVM RNA-class probability 0.991504
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16379976 95 + 27905053
GAAUGCGCGACUAUGGAUAAAUAAACGGAGGGACAUAGGAAACUUUGACACUCCACUACGCUCUAUAAUUUAGUUCGGUUUGAAGUCAAAUACUC
........((((.(..((........((((...((.((....)).))...))))....((..(((.....)))..))))..).))))........ ( -20.20, z-score =  -1.63, R)
>droSec1.super_27 443277 95 - 799419
GAAUGCGCGACUAUGGAUCAAUAAACGGAGGGACAUAGGAAACUUUGACUCUCCACUACACUCUAUAAUUUAGUUUGGUUUGCAGUCAAAUACUC
........((((..(((((((.....((((((.((.((....)).)).))))))........(((.....))).)))))))..))))........ ( -25.60, z-score =  -3.47, R)
>droSim1.chr3R 22427140 95 - 27517382
GAAUGCGCGACUAUGGAUAAACAAACGGAGGGACAUAGGAAACUUUGACUCUCCACUACACUCUAAAAUUUAGUUUGGUUUGCAGUCAAAUACUC
((.((((.(((((((......))...((((((.((.((....)).)).)))))).....................))))))))).))........ ( -23.10, z-score =  -2.80, R)
>consensus
GAAUGCGCGACUAUGGAUAAAUAAACGGAGGGACAUAGGAAACUUUGACUCUCCACUACACUCUAUAAUUUAGUUUGGUUUGCAGUCAAAUACUC
........((((..((((........((((((.((.((....)).)).))))))....((..(((.....)))..))))))..))))........ (-22.18 = -22.07 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 16,380,071 – 16,380,126
Length 55
Sequences 3
Columns 55
Reading direction reverse
Mean pairwise identity 97.58
Shannon entropy 0.03339
G+C content 0.35152
Mean single sequence MFE -11.38
Consensus MFE -11.35
Energy contribution -11.13
Covariance contribution -0.22
Combinations/Pair 1.07
Mean z-score -1.26
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.84
SVM RNA-class probability 0.832471
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16380071 55 - 27905053
AUUGGCGACACAAUGAAAACUCUUGAAUUUUUGUGUUUGUCGACAGUAAAAUGUC
...((((((((((.................))))).)))))((((......)))) ( -10.83, z-score =  -0.86, R)
>droSim1.chr3R 22427235 55 + 27517382
AUUGGCGAUACAAUGAAAACUCUUGAAUUUUUGUGUUUGUCGGCAGUAAAAUGUC
((((.(((((..(..((((........))))..)...))))).))))........ ( -10.70, z-score =  -1.33, R)
>droSec1.super_27 443372 55 + 799419
AUUGGCGACACAAUGAAAACUCUUGAAUUUUUGUGUUUGUCGGCAGUAAAAUGUC
((((.(((((..(..((((........))))..)...))))).))))........ ( -12.60, z-score =  -1.59, R)
>consensus
AUUGGCGACACAAUGAAAACUCUUGAAUUUUUGUGUUUGUCGGCAGUAAAAUGUC
((((.(((((..(..((((........))))..)...))))).))))........ (-11.35 = -11.13 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:30:13 2011