Locus 10609

Sequence ID dm3.chr3R
Location 15,030,148 – 15,030,293
Length 145
Max. P 0.997973
window14587 window14588

overview

Window 7

Location 15,030,148 – 15,030,253
Length 105
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 95.37
Shannon entropy 0.06569
G+C content 0.54206
Mean single sequence MFE -36.52
Consensus MFE -35.74
Energy contribution -36.40
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.18
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.59
SVM RNA-class probability 0.753834
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 15030148 105 + 27905053
GCCGCCAACAAGCGGAAACAGGAAGUGCGACUAUUGUUAGGGGUGUAUGGGUGUGUGU--UAGUUAG-UUAGUUGUGUGCGUGCGUGCCCGUGCAUCCGUGUGAGUGC
.((((......)))).........(..(..(((....)))(((((((((((..((..(--..((...-..........)))..))..)))))))))))......)..) ( -33.62, z-score =  -0.49, R)
>droSim1.chr3R 21065558 108 - 27517382
GCCGCCAACAAGCGGAAACAGGAAGUGCGACUAUUGUUAGGGGUGUAUGGGUGUGUGUGUUAGUUUUCUUGUUUGUGUGCGUGCGUGCCCGUGCAUCCGUGUGAGUGC
.((((......)))).........(..(..(((....)))(((((((((((..((..(((..................)))..))..)))))))))))......)..) ( -37.97, z-score =  -1.60, R)
>droSec1.super_25 92463 108 - 827797
GCCGCCAACAAGCGGAAACAGGAAGUGCGACUAUUGUUAGGGGUGUAUGGGUGUGUGUGUUAGUUUCCUUGUUUGUGUGCGUGCGUGCCCGUGCAUCCGUGUGAGUGC
.((((......)))).........(..(..(((....)))(((((((((((..((..(((..................)))..))..)))))))))))......)..) ( -37.97, z-score =  -1.45, R)
>consensus
GCCGCCAACAAGCGGAAACAGGAAGUGCGACUAUUGUUAGGGGUGUAUGGGUGUGUGUGUUAGUUUCCUUGUUUGUGUGCGUGCGUGCCCGUGCAUCCGUGUGAGUGC
.((((......)))).........(..(..(((....)))(((((((((((..((..(((..................)))..))..)))))))))))......)..) (-35.74 = -36.40 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 15,030,186 – 15,030,293
Length 107
Sequences 3
Columns 110
Reading direction forward
Mean pairwise identity 95.45
Shannon entropy 0.06450
G+C content 0.50459
Mean single sequence MFE -45.62
Consensus MFE -44.84
Energy contribution -45.50
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -5.82
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.22
SVM RNA-class probability 0.997973
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3R 15030186 107 + 27905053
AGGGGUGUAUGGGUGUGUGU--UAGUUAGUUAGUU-GUGUGCGUGCGUGCCCGUGCAUCCGUGUGAGUGCUUUCGCUGCAUGUGGCUGUGUGAAAGCGCUAAAAUGAAAA
..(((((((((((..((..(--..((.........-....)))..))..)))))))))))((...(((((((((((.((.....))...)))))))))))...))..... ( -42.72, z-score =  -4.72, R)
>droSim1.chr3R 21065596 110 - 27517382
AGGGGUGUAUGGGUGUGUGUGUUAGUUUUCUUGUUUGUGUGCGUGCGUGCCCGUGCAUCCGUGUGAGUGCUUUCGCUGCAUGUGGCUGUGUGAAAGCGCUAAAAUGAAAA
..(((((((((((..((..(((..................)))..))..)))))))))))((...(((((((((((.((.....))...)))))))))))...))..... ( -47.07, z-score =  -6.49, R)
>droSec1.super_25 92501 110 - 827797
AGGGGUGUAUGGGUGUGUGUGUUAGUUUCCUUGUUUGUGUGCGUGCGUGCCCGUGCAUCCGUGUGAGUGCUUUCGCUGCAUGUGGCUGUGUGAAAGCGCUAAAAUGAAAA
..(((((((((((..((..(((..................)))..))..)))))))))))((...(((((((((((.((.....))...)))))))))))...))..... ( -47.07, z-score =  -6.26, R)
>consensus
AGGGGUGUAUGGGUGUGUGUGUUAGUUUCCUUGUUUGUGUGCGUGCGUGCCCGUGCAUCCGUGUGAGUGCUUUCGCUGCAUGUGGCUGUGUGAAAGCGCUAAAAUGAAAA
..(((((((((((..((..(((..................)))..))..)))))))))))((...(((((((((((.((.....))...)))))))))))...))..... (-44.84 = -45.50 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:27:10 2011