Locus 7506

Sequence ID dm3.chr3L
Location 15,250,648 – 15,250,753
Length 105
Max. P 0.869892
window10338 window10339

overview

Window 8

Location 15,250,648 – 15,250,753
Length 105
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 94.31
Shannon entropy 0.08859
G+C content 0.41012
Mean single sequence MFE -26.57
Consensus MFE -27.27
Energy contribution -27.40
Covariance contribution 0.13
Combinations/Pair 1.07
Mean z-score -0.79
Structure conservation index 1.03
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.64
SVM RNA-class probability 0.771577
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15250648 105 + 24543557
GAAGAGAACCCCACUGAAUCUGAUCAGUUUGGCAUUUGAUAAUUAUGGCUUAUUGUAGUCGCCAGAAUGGAUGGAUGUGGAGUUCAGUUUUGGUUUCAUUUCUAU
.....((((.((((...(((((.(((.(((((((((....)))...((((......)))))))))).))).))))))))).)))).................... ( -24.90, z-score =  -0.20, R)
>droSim1.chr3L 14588838 100 + 22553184
GAAGAGAACCCCACUGGAUCUGAUCAUUUUGGCAUUUGAUAAUUAUGGCUUAUUGUAGUCGCCAGAAUGGAUGGAUGUGGAGUUCAGUUUUGGUUCGAUU-----
.....((((.((((...(((((.(((((((((((((....)))...((((......)))))))))))))).))))))))).))))...............----- ( -28.60, z-score =  -1.53, R)
>droSec1.super_0 7360974 100 + 21120651
GAAGAGAACCCCACUGGAUCUGAUCAUUUUGGCAUUUGAUAAUUAUGGCUUAUUGUAGUCGCCAGAAUGGAUGGAUGUGGAGUUCAGUUUUGGUUCGAUU-----
.....((((.((((...(((((.(((((((((((((....)))...((((......)))))))))))))).))))))))).))))...............----- ( -28.60, z-score =  -1.53, R)
>droEre2.scaffold_4784 17509654 100 + 25762168
GAAGAGAGCCCCACUGAAUCUGAUCAGUUUGGCAUUUGAUAAUUAUGGCUUAUUGUAGUCGCCAGGAUGGAUGGAUGUGGAGUUCAGUUUUGGUUCGAUU-----
.....(((((..(((((((((((((..(((((((((....)))...((((......))))))))))...))).....)))).))))))...)))))....----- ( -24.20, z-score =   0.11, R)
>consensus
GAAGAGAACCCCACUGAAUCUGAUCAGUUUGGCAUUUGAUAAUUAUGGCUUAUUGUAGUCGCCAGAAUGGAUGGAUGUGGAGUUCAGUUUUGGUUCGAUU_____
.....((((.((((...(((((.(((((((((((((....)))...((((......)))))))))))))).))))))))).)))).................... (-27.27 = -27.40 +   0.13)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location 15,250,648 – 15,250,753
Length 105
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 94.31
Shannon entropy 0.08859
G+C content 0.41012
Mean single sequence MFE -20.15
Consensus MFE -18.83
Energy contribution -19.83
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.72
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.99
SVM RNA-class probability 0.869892
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15250648 105 - 24543557
AUAGAAAUGAAACCAAAACUGAACUCCACAUCCAUCCAUUCUGGCGACUACAAUAAGCCAUAAUUAUCAAAUGCCAAACUGAUCAGAUUCAGUGGGGUUCUCUUC
....................(((((((((............((((...........))))...................(((......))))))))))))..... ( -20.40, z-score =  -1.39, R)
>droSim1.chr3L 14588838 100 - 22553184
-----AAUCGAACCAAAACUGAACUCCACAUCCAUCCAUUCUGGCGACUACAAUAAGCCAUAAUUAUCAAAUGCCAAAAUGAUCAGAUCCAGUGGGGUUCUCUUC
-----...............((((((((((((....((((.(((((......((((.......))))....))))).))))....)))...)))))))))..... ( -21.60, z-score =  -2.32, R)
>droSec1.super_0 7360974 100 - 21120651
-----AAUCGAACCAAAACUGAACUCCACAUCCAUCCAUUCUGGCGACUACAAUAAGCCAUAAUUAUCAAAUGCCAAAAUGAUCAGAUCCAGUGGGGUUCUCUUC
-----...............((((((((((((....((((.(((((......((((.......))))....))))).))))....)))...)))))))))..... ( -21.60, z-score =  -2.32, R)
>droEre2.scaffold_4784 17509654 100 - 25762168
-----AAUCGAACCAAAACUGAACUCCACAUCCAUCCAUCCUGGCGACUACAAUAAGCCAUAAUUAUCAAAUGCCAAACUGAUCAGAUUCAGUGGGGCUCUCUUC
-----....................................((((...........))))............(((..(((((......)))))..)))....... ( -17.00, z-score =  -0.83, R)
>consensus
_____AAUCGAACCAAAACUGAACUCCACAUCCAUCCAUUCUGGCGACUACAAUAAGCCAUAAUUAUCAAAUGCCAAAAUGAUCAGAUCCAGUGGGGUUCUCUUC
....................((((((((((((....((((.(((((......((((.......))))....))))).))))....)))...)))))))))..... (-18.83 = -19.83 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:28:15 2011