Locus 8727

Sequence ID dm3.chr3R
Location 1,077,106 – 1,077,201
Length 95
Max. P 0.984638
window11979 window11980

overview

Window 9

Location 1,077,106 – 1,077,201
Length 95
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 98.32
Shannon entropy 0.03040
G+C content 0.60632
Mean single sequence MFE -21.21
Consensus MFE -20.69
Energy contribution -20.93
Covariance contribution 0.24
Combinations/Pair 1.05
Mean z-score -2.40
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.17
SVM RNA-class probability 0.984638
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 1077106 95 + 27905053
CGCUGCUGAAUCAUAACAAAACAACACACGCACACUCACCUCCGCAUCGCCCUGUGCCUGUCCCGCUCGCUCCUCCGCAAGCUCCUCGCCAGCUG
.((((.(((................(((.(((((..................))))).)))...(((.((......)).)))...))).)))).. ( -18.87, z-score =  -1.77, R)
>droSim1.chr3R 1103494 95 + 27517382
CGUUGCUGAAUCAUAACAAAACAACACACGCACACUCACCUCCGCAUCGCCCUGUGCCUGUCCCGCUCGCUCCUCCGCGAGCUCCUCGCCAGCUG
....((((.................(((.(((((..................))))).)))...((((((......)))))).......)))).. ( -22.77, z-score =  -2.81, R)
>droSec1.super_6 1200892 95 + 4358794
CGUUGCUGAAUCAUAACAAAACAACACACGCACACUCACCUCCGCAUCGCCCUGUGCCUGUCCCGCUCGCUCCUCCACGAGCUCCUCGCCAGCUG
....((((.................(((.(((((..................))))).)))...(((((........))))).......)))).. ( -18.87, z-score =  -1.91, R)
>droYak2.chr3R 1445691 95 + 28832112
CGUUGCUGAAUCAUAACAAAACAACACACGCACACUCACCUCCGCAUCGCCCUGUGCCUGUCCCGCUCGCUCCUCCGCGAGCUCCUCGCCAGCUG
....((((.................(((.(((((..................))))).)))...((((((......)))))).......)))).. ( -22.77, z-score =  -2.81, R)
>droEre2.scaffold_4770 1354028 95 + 17746568
CGUUGCUGAAUCAUAACAAAACAACACACGCACACUCACCUCUGCAUCGCCCUGUGCCUGUCCCGCUCGCUCCUCCGCGAGCUCCUCGCCAGCUG
....((((.................(((.(((((..................))))).)))...((((((......)))))).......)))).. ( -22.77, z-score =  -2.71, R)
>consensus
CGUUGCUGAAUCAUAACAAAACAACACACGCACACUCACCUCCGCAUCGCCCUGUGCCUGUCCCGCUCGCUCCUCCGCGAGCUCCUCGCCAGCUG
.((((.(((................(((.(((((..................))))).)))...((((((......))))))...))).)))).. (-20.69 = -20.93 +   0.24)

alignment

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secondary structure

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dotplot

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Window 0

Location 1,077,106 – 1,077,201
Length 95
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 98.32
Shannon entropy 0.03040
G+C content 0.60632
Mean single sequence MFE -32.06
Consensus MFE -32.44
Energy contribution -31.96
Covariance contribution -0.48
Combinations/Pair 1.10
Mean z-score -1.06
Structure conservation index 1.01
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.64
SVM RNA-class probability 0.771701
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 1077106 95 - 27905053
CAGCUGGCGAGGAGCUUGCGGAGGAGCGAGCGGGACAGGCACAGGGCGAUGCGGAGGUGAGUGUGCGUGUGUUGUUUUGUUAUGAUUCAGCAGCG
..((((..(((..((((((......))))))..((((((.((((.((.(((((.(......).))))))).))))))))))....)))..)))). ( -31.10, z-score =  -0.66, R)
>droSim1.chr3R 1103494 95 - 27517382
CAGCUGGCGAGGAGCUCGCGGAGGAGCGAGCGGGACAGGCACAGGGCGAUGCGGAGGUGAGUGUGCGUGUGUUGUUUUGUUAUGAUUCAGCAACG
..(((((......((((((......))))))..((((((.((((.((.(((((.(......).))))))).)))))))))).....))))).... ( -32.70, z-score =  -1.17, R)
>droSec1.super_6 1200892 95 - 4358794
CAGCUGGCGAGGAGCUCGUGGAGGAGCGAGCGGGACAGGCACAGGGCGAUGCGGAGGUGAGUGUGCGUGUGUUGUUUUGUUAUGAUUCAGCAACG
..(((((......((((((......))))))..((((((.((((.((.(((((.(......).))))))).)))))))))).....))))).... ( -30.40, z-score =  -0.75, R)
>droYak2.chr3R 1445691 95 - 28832112
CAGCUGGCGAGGAGCUCGCGGAGGAGCGAGCGGGACAGGCACAGGGCGAUGCGGAGGUGAGUGUGCGUGUGUUGUUUUGUUAUGAUUCAGCAACG
..(((((......((((((......))))))..((((((.((((.((.(((((.(......).))))))).)))))))))).....))))).... ( -32.70, z-score =  -1.17, R)
>droEre2.scaffold_4770 1354028 95 - 17746568
CAGCUGGCGAGGAGCUCGCGGAGGAGCGAGCGGGACAGGCACAGGGCGAUGCAGAGGUGAGUGUGCGUGUGUUGUUUUGUUAUGAUUCAGCAACG
..(((((......((((((......))))))..((((((.((((.((.(((((.(......).))))))).)))))))))).....))))).... ( -33.40, z-score =  -1.55, R)
>consensus
CAGCUGGCGAGGAGCUCGCGGAGGAGCGAGCGGGACAGGCACAGGGCGAUGCGGAGGUGAGUGUGCGUGUGUUGUUUUGUUAUGAUUCAGCAACG
..(((((......((((((......))))))..((((((.((((.((.(((((.(......).))))))).)))))))))).....))))).... (-32.44 = -31.96 +  -0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:50:59 2011