Locus 10467

Sequence ID dm3.chr3R
Location 13,957,530 – 13,957,594
Length 64
Max. P 0.941375
window14400 window14401

overview

Window 0

Location 13,957,530 – 13,957,594
Length 64
Sequences 4
Columns 65
Reading direction forward
Mean pairwise identity 70.90
Shannon entropy 0.45513
G+C content 0.67458
Mean single sequence MFE -30.78
Consensus MFE -20.15
Energy contribution -20.77
Covariance contribution 0.63
Combinations/Pair 1.40
Mean z-score -1.68
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.47
SVM RNA-class probability 0.941375
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 13957530 64 + 27905053
UUCCGGCGGAUCUGGUGGCAGUUCGGCGGCAGCUGCUGCCG-CCGCUGCUGCAGCAGCAGCAGCA
....((((((.(((....))))))((((((....)))))))-))((((((((....)))))))). ( -37.60, z-score =  -1.89, R)
>droYak2.chr3R 27532911 58 + 28832112
-UUCAA--GAUGCGCCCGGGCGGCGACUUCGCCUCCAACCAUCCCCUGAUG-AACAGUAUUA---
-.....--(((((....(((.((((....)))))))...((((....))))-....))))).--- ( -16.60, z-score =  -1.65, R)
>droSec1.super_12 1923501 61 - 2123299
UUCCGGCGGAUCUGGUGGCAGUUCGGCGGCAGCUGCUGCCG-CCGCUGCUGCAGCAGCAGCA---
....((((((.(((....))))))((((((....)))))))-))(((((((...))))))).--- ( -32.60, z-score =  -0.90, R)
>droSim1.chr3R 19991594 61 - 27517382
UUCCGGCGGAUCCGGUGGGAGUUCGGCGGCAGCUGCUGCCG-CCGCUGCUGCAGCAGCAGCA---
(((((.((....)).)))))....((((((((...))))))-))(((((((...))))))).--- ( -36.30, z-score =  -2.26, R)
>consensus
UUCCGGCGGAUCCGGUGGCAGUUCGGCGGCAGCUGCUGCCG_CCGCUGCUGCAGCAGCAGCA___
....(((((...((((((((((.........)))))))))).)))))(((((....))))).... (-20.15 = -20.77 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 13,957,530 – 13,957,594
Length 64
Sequences 4
Columns 65
Reading direction reverse
Mean pairwise identity 70.90
Shannon entropy 0.45513
G+C content 0.67458
Mean single sequence MFE -30.23
Consensus MFE -15.11
Energy contribution -14.93
Covariance contribution -0.19
Combinations/Pair 1.44
Mean z-score -2.05
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.13
SVM RNA-class probability 0.897468
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 13957530 64 - 27905053
UGCUGCUGCUGCUGCAGCAGCGG-CGGCAGCAGCUGCCGCCGAACUGCCACCAGAUCCGCCGGAA
.((((((((((((((....))))-))))))))))..((((.((.(((....))).)).).))).. ( -36.30, z-score =  -2.75, R)
>droYak2.chr3R 27532911 58 - 28832112
---UAAUACUGUU-CAUCAGGGGAUGGUUGGAGGCGAAGUCGCCGCCCGGGCGCAUC--UUGAA-
---..........-..((((((..((.((((.((((....))))..)))).))..))--)))).- ( -20.60, z-score =  -1.26, R)
>droSec1.super_12 1923501 61 + 2123299
---UGCUGCUGCUGCAGCAGCGG-CGGCAGCAGCUGCCGCCGAACUGCCACCAGAUCCGCCGGAA
---((((((((((((....))))-))))))))....((((.((.(((....))).)).).))).. ( -29.90, z-score =  -1.32, R)
>droSim1.chr3R 19991594 61 + 27517382
---UGCUGCUGCUGCAGCAGCGG-CGGCAGCAGCUGCCGCCGAACUCCCACCGGAUCCGCCGGAA
---((((((....)))))).(((-((((((...)))))))))........((((.....)))).. ( -34.10, z-score =  -2.89, R)
>consensus
___UGCUGCUGCUGCAGCAGCGG_CGGCAGCAGCUGCCGCCGAACUCCCACCAGAUCCGCCGGAA
...((((((....))))))((((.((((.((....)).))))..((......))..))))..... (-15.11 = -14.93 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:24:35 2011