Locus 11166

Sequence ID dm3.chr3R
Location 19,170,741 – 19,170,840
Length 99
Max. P 0.820283
window15339 window15340

overview

Window 9

Location 19,170,741 – 19,170,840
Length 99
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 99.60
Shannon entropy 0.00729
G+C content 0.55354
Mean single sequence MFE -31.58
Consensus MFE -31.58
Energy contribution -31.58
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -0.89
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.14
SVM RNA-class probability 0.563427
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 19170741 99 + 27905053
UUCUGUUGGCCUGGCCAACAACGAGUUUAUAGAGGCAGCAAUCCUGAAUCGAGGCGAGAUCGCGAGAUCGGCGGAUCUACCGAGCGGUAGCCAAACCAG
...(((((((...)))))))..(.((((...((..(((.....)))..))..(((...(((((.(((((....))))).....))))).)))))))).. ( -31.80, z-score =  -0.90, R)
>droSim1.chr3R 18987857 99 + 27517382
UUCUGUUGGCCUGGCCAACAACGAGUUUAUAGAGGCAGCAAUCCUGAAUCGAGGCGAGAUCGCGAGAUCGGCGGAUCUACCGAGCGGUAGCCAAACCAG
...(((((((...)))))))..(.((((...((..(((.....)))..))..(((...(((((.(((((....))))).....))))).)))))))).. ( -31.80, z-score =  -0.90, R)
>droSec1.super_0 19534925 99 + 21120651
UUCUGUUGGCCUGGCCAACAACGAGUUUAUAGAGGCAGCAAUCCUGAAUCGAGGCAAGAUCGCGAGAUCGGCGGAUCUACCGAGCGGUAGCCAAACCAG
...(((((((...)))))))..(.((((...((..(((.....)))..))..(((...(((((.(((((....))))).....))))).)))))))).. ( -30.70, z-score =  -0.87, R)
>droYak2.chr3R 20048752 99 + 28832112
UUCUGUUGGCCUGGCCAACAACGAGUUUAUAGAGGCAGCAAUCCUGAAUCGAGGCGAGAUCGCGAGAUCGGCGGAUCUACCGAGCGGUAGCCAAACCAG
...(((((((...)))))))..(.((((...((..(((.....)))..))..(((...(((((.(((((....))))).....))))).)))))))).. ( -31.80, z-score =  -0.90, R)
>droEre2.scaffold_4820 1587820 99 - 10470090
UUCUGUUGGCCUGGCCAACAACGAGUUUAUAGAGGCAGCAAUCCUGAAUCGAGGCGAGAUCGCGAGAUCGGCGGAUCUACCGAGCGGUAGCCAAACCAG
...(((((((...)))))))..(.((((...((..(((.....)))..))..(((...(((((.(((((....))))).....))))).)))))))).. ( -31.80, z-score =  -0.90, R)
>consensus
UUCUGUUGGCCUGGCCAACAACGAGUUUAUAGAGGCAGCAAUCCUGAAUCGAGGCGAGAUCGCGAGAUCGGCGGAUCUACCGAGCGGUAGCCAAACCAG
...(((((((...)))))))..(.((((...((..(((.....)))..))..(((...(((((.(((((....))))).....))))).)))))))).. (-31.58 = -31.58 +   0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 19,170,741 – 19,170,840
Length 99
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 99.60
Shannon entropy 0.00729
G+C content 0.55354
Mean single sequence MFE -33.22
Consensus MFE -32.50
Energy contribution -32.34
Covariance contribution -0.16
Combinations/Pair 1.03
Mean z-score -1.46
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.80
SVM RNA-class probability 0.820283
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 19170741 99 - 27905053
CUGGUUUGGCUACCGCUCGGUAGAUCCGCCGAUCUCGCGAUCUCGCCUCGAUUCAGGAUUGCUGCCUCUAUAAACUCGUUGUUGGCCAGGCCAACAGAA
.((((((((((.......(((((((((...((((..(((....)))...))))..))))..)))))......(((.....)))))))))))))...... ( -32.90, z-score =  -1.33, R)
>droSim1.chr3R 18987857 99 - 27517382
CUGGUUUGGCUACCGCUCGGUAGAUCCGCCGAUCUCGCGAUCUCGCCUCGAUUCAGGAUUGCUGCCUCUAUAAACUCGUUGUUGGCCAGGCCAACAGAA
.((((((((((.......(((((((((...((((..(((....)))...))))..))))..)))))......(((.....)))))))))))))...... ( -32.90, z-score =  -1.33, R)
>droSec1.super_0 19534925 99 - 21120651
CUGGUUUGGCUACCGCUCGGUAGAUCCGCCGAUCUCGCGAUCUUGCCUCGAUUCAGGAUUGCUGCCUCUAUAAACUCGUUGUUGGCCAGGCCAACAGAA
.((((((((((((.(((((((......)))))....(((((((((........)))))))))...............)).).)))))))))))...... ( -34.50, z-score =  -1.96, R)
>droYak2.chr3R 20048752 99 - 28832112
CUGGUUUGGCUACCGCUCGGUAGAUCCGCCGAUCUCGCGAUCUCGCCUCGAUUCAGGAUUGCUGCCUCUAUAAACUCGUUGUUGGCCAGGCCAACAGAA
.((((((((((.......(((((((((...((((..(((....)))...))))..))))..)))))......(((.....)))))))))))))...... ( -32.90, z-score =  -1.33, R)
>droEre2.scaffold_4820 1587820 99 + 10470090
CUGGUUUGGCUACCGCUCGGUAGAUCCGCCGAUCUCGCGAUCUCGCCUCGAUUCAGGAUUGCUGCCUCUAUAAACUCGUUGUUGGCCAGGCCAACAGAA
.((((((((((.......(((((((((...((((..(((....)))...))))..))))..)))))......(((.....)))))))))))))...... ( -32.90, z-score =  -1.33, R)
>consensus
CUGGUUUGGCUACCGCUCGGUAGAUCCGCCGAUCUCGCGAUCUCGCCUCGAUUCAGGAUUGCUGCCUCUAUAAACUCGUUGUUGGCCAGGCCAACAGAA
.((((((((((.......(((((((((...((((..(((....)))...))))..))))..)))))......(((.....)))))))))))))...... (-32.50 = -32.34 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:37:37 2011