Locus 10582

Sequence ID dm3.chr3R
Location 14,876,621 – 14,876,673
Length 52
Max. P 0.942882
window14548 window14549

overview

Window 8

Location 14,876,621 – 14,876,673
Length 52
Sequences 3
Columns 52
Reading direction forward
Mean pairwise identity 94.84
Shannon entropy 0.07064
G+C content 0.65586
Mean single sequence MFE -15.43
Consensus MFE -12.63
Energy contribution -13.07
Covariance contribution 0.45
Combinations/Pair 1.09
Mean z-score -2.19
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.57
SVM RNA-class probability 0.746627
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14876621 52 + 27905053
UGCUCGCUCACCAGCCGCCAACCACCGACUCACUCCUGGCGGCAGCACAAUC
.....(((.....(((((((................))))))))))...... ( -14.39, z-score =  -2.30, R)
>droSec1.super_77 55340 51 - 117255
-GCUCGCUCACCAGCAGCCAGCCACCGACUCACUCCUGGUGGCAGCACAAUC
-(((.((.((((((.((..((.......))..)).)))))))))))...... ( -16.60, z-score =  -2.36, R)
>droSim1.chr3R 20917372 51 - 27517382
-GCUCGCUCACCAGCCGCCAGCCACCGACUCACUCCUGGUGGCAGCACAAUC
-(((.(((....))).....(((((((.........))))))))))...... ( -15.30, z-score =  -1.90, R)
>consensus
_GCUCGCUCACCAGCCGCCAGCCACCGACUCACUCCUGGUGGCAGCACAAUC
.....(((.....((((((((..............)))))))))))...... (-12.63 = -13.07 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 14,876,621 – 14,876,673
Length 52
Sequences 3
Columns 52
Reading direction reverse
Mean pairwise identity 94.84
Shannon entropy 0.07064
G+C content 0.65586
Mean single sequence MFE -22.17
Consensus MFE -20.54
Energy contribution -20.10
Covariance contribution -0.44
Combinations/Pair 1.12
Mean z-score -2.10
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.49
SVM RNA-class probability 0.942882
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14876621 52 - 27905053
GAUUGUGCUGCCGCCAGGAGUGAGUCGGUGGUUGGCGGCUGGUGAGCGAGCA
.....((((((((((((..((.(..(...)..).))..)))))).)).)))) ( -19.20, z-score =  -0.88, R)
>droSec1.super_77 55340 51 + 117255
GAUUGUGCUGCCACCAGGAGUGAGUCGGUGGCUGGCUGCUGGUGAGCGAGC-
......(((((((((((.(((.(((.....))).))).)))))).)).)))- ( -25.20, z-score =  -3.36, R)
>droSim1.chr3R 20917372 51 + 27517382
GAUUGUGCUGCCACCAGGAGUGAGUCGGUGGCUGGCGGCUGGUGAGCGAGC-
......(((((((((((..((.(((.....))).))..)))))).)).)))- ( -22.10, z-score =  -2.07, R)
>consensus
GAUUGUGCUGCCACCAGGAGUGAGUCGGUGGCUGGCGGCUGGUGAGCGAGC_
......(((((((((((..((.(((.....))).))..)))))).)).))). (-20.54 = -20.10 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:26:38 2011