Locus 10909

Sequence ID dm3.chr3R
Location 17,421,536 – 17,421,645
Length 109
Max. P 0.988985
window14991 window14992

overview

Window 1

Location 17,421,536 – 17,421,645
Length 109
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 95.41
Shannon entropy 0.08476
G+C content 0.47878
Mean single sequence MFE -33.64
Consensus MFE -31.40
Energy contribution -31.68
Covariance contribution 0.28
Combinations/Pair 1.09
Mean z-score -2.65
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.26
SVM RNA-class probability 0.987053
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 17421536 109 + 27905053
CAAAAUGCAUUUCUAUUAAAUAAAUAACACGAGACAACCGACGCAACGUCCCCCCAAUGAGGUCCCCACUGAAAUCACAGUGGGGAGAAUUCGGAGGUUUGGACGUGCU
..........................................(((.(((((..((..((((.(((((((((......)))))))))...))))..))...)))))))). ( -33.80, z-score =  -2.92, R)
>droSim1.chr3R 23470856 109 - 27517382
CAAAAUGCAUUUCUAUUAAAUAAAUAACACGAGACAACCGACGCAACGUCCCCCCAAUGAGGCCCCCACUGAAAUCACAGUGGGGAGAAUUCGGAGGGUUGGACGUGCU
..........................................(((.(((((.(((..((((..((((((((......))))))))....))))..)))..)))))))). ( -35.20, z-score =  -3.05, R)
>droSec1.super_6 290764 109 - 4358794
CAAAAUGCAUUUCUAUUAAAUAAAUAACACGAGACAACCGACGCAACGUCCCCCCAAUGAGGCCCCCACUGAAAUCACAGUGGGGAGAAUUCGGAGGGUUGGACGUGCU
..........................................(((.(((((.(((..((((..((((((((......))))))))....))))..)))..)))))))). ( -35.20, z-score =  -3.05, R)
>droYak2.chr3R 6258985 107 + 28832112
CAAAAUGCAUUUGAAUCAAAUAAAUAACACGAGACAACCGACGCAACGUCCCCCCAAUGGGGACCCC--UGAAAUAAUAGUGGGGAGAAUUCGUAGGGUUGGACGUGCU
...........................((((...(((((.(((....((((((.....))))))(((--(...........))))......)))..)))))..)))).. ( -28.80, z-score =  -1.11, R)
>droEre2.scaffold_4770 13504798 109 - 17746568
CAAAAUGCAUUUCUAUAAAAUAAAUAACACGAGACAACCGACGCAACGUCCCCCCAAUGAGGCCCCCACUGAAAUCACAGUGGGGAGAAUUCGGAGGGUUGGACGUGCU
..........................................(((.(((((.(((..((((..((((((((......))))))))....))))..)))..)))))))). ( -35.20, z-score =  -3.14, R)
>consensus
CAAAAUGCAUUUCUAUUAAAUAAAUAACACGAGACAACCGACGCAACGUCCCCCCAAUGAGGCCCCCACUGAAAUCACAGUGGGGAGAAUUCGGAGGGUUGGACGUGCU
..........................................(((.(((((.(((..((((..((((((((......))))))))....))))..)))..)))))))). (-31.40 = -31.68 +   0.28)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,421,536 – 17,421,645
Length 109
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 95.41
Shannon entropy 0.08476
G+C content 0.47878
Mean single sequence MFE -37.48
Consensus MFE -34.20
Energy contribution -35.28
Covariance contribution 1.08
Combinations/Pair 1.03
Mean z-score -2.85
Structure conservation index 0.91
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.35
SVM RNA-class probability 0.988985
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 17421536 109 - 27905053
AGCACGUCCAAACCUCCGAAUUCUCCCCACUGUGAUUUCAGUGGGGACCUCAUUGGGGGGACGUUGCGUCGGUUGUCUCGUGUUAUUUAUUUAAUAGAAAUGCAUUUUG
((((((.((...(((((((....(((((((((......))))))))).....)))))))((((...))))))......))))))......................... ( -37.70, z-score =  -3.04, R)
>droSim1.chr3R 23470856 109 + 27517382
AGCACGUCCAACCCUCCGAAUUCUCCCCACUGUGAUUUCAGUGGGGGCCUCAUUGGGGGGACGUUGCGUCGGUUGUCUCGUGUUAUUUAUUUAAUAGAAAUGCAUUUUG
((((((..(((((((((.(((..(((((((((......)))))))))....))).))))((((...)))))))))...))))))......................... ( -39.50, z-score =  -3.14, R)
>droSec1.super_6 290764 109 + 4358794
AGCACGUCCAACCCUCCGAAUUCUCCCCACUGUGAUUUCAGUGGGGGCCUCAUUGGGGGGACGUUGCGUCGGUUGUCUCGUGUUAUUUAUUUAAUAGAAAUGCAUUUUG
((((((..(((((((((.(((..(((((((((......)))))))))....))).))))((((...)))))))))...))))))......................... ( -39.50, z-score =  -3.14, R)
>droYak2.chr3R 6258985 107 - 28832112
AGCACGUCCAACCCUACGAAUUCUCCCCACUAUUAUUUCA--GGGGUCCCCAUUGGGGGGACGUUGCGUCGGUUGUCUCGUGUUAUUUAUUUGAUUCAAAUGCAUUUUG
((((((..(((((..((((((((((((((((........)--)((....))..)))))))).))).))).)))))...))))))...((((((...))))))....... ( -31.20, z-score =  -1.76, R)
>droEre2.scaffold_4770 13504798 109 + 17746568
AGCACGUCCAACCCUCCGAAUUCUCCCCACUGUGAUUUCAGUGGGGGCCUCAUUGGGGGGACGUUGCGUCGGUUGUCUCGUGUUAUUUAUUUUAUAGAAAUGCAUUUUG
((((((..(((((((((.(((..(((((((((......)))))))))....))).))))((((...)))))))))...))))))......................... ( -39.50, z-score =  -3.18, R)
>consensus
AGCACGUCCAACCCUCCGAAUUCUCCCCACUGUGAUUUCAGUGGGGGCCUCAUUGGGGGGACGUUGCGUCGGUUGUCUCGUGUUAUUUAUUUAAUAGAAAUGCAUUUUG
((((((..(((((((((.(((..(((((((((......)))))))))....))).))))((((...)))))))))...))))))......................... (-34.20 = -35.28 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:32:48 2011