Locus 1362

Sequence ID dm3.chr2L
Location 10,558,299 – 10,558,396
Length 97
Max. P 0.983825
window1857 window1858

overview

Window 7

Location 10,558,299 – 10,558,396
Length 97
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 90.93
Shannon entropy 0.16223
G+C content 0.45843
Mean single sequence MFE -30.12
Consensus MFE -25.62
Energy contribution -26.30
Covariance contribution 0.68
Combinations/Pair 1.06
Mean z-score -2.72
Structure conservation index 0.85
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.15
SVM RNA-class probability 0.983825
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 10558299 97 + 23011544
AUGCUGAUUAGGAUGGAACGAAACGGAAUGUCGAAGAUAUCGACGGACAGGAGGCGACUUUCUUCGUCCUGAUUGUGCCAUUUUAAUUAAAGCACGG
.(((((((((((((((.((((........(((((.....)))))((((.(((((......)))))))))...)))).)))))))))))..))))... ( -32.40, z-score =  -3.46, R)
>droEre2.scaffold_4929 11771928 92 - 26641161
AUGCUGAUUAGGACGGAGGA-----GAACGUCGAAGAUAUCGACGCACAGGAGGCGACUUUCUUUGUCCUGAUUGUGCCAUUUUAAUUAAAGCUCGG
..((((((((((((((((((-----...((((((.....))))))......((....)))))))))))))))))).))................... ( -28.70, z-score =  -2.21, R)
>droYak2.chr2L 6967551 97 + 22324452
AUGCUGAUUAGGACGGAACGAAACGGAACGUCGAAGAUAUCGACACACAGGAGGCGACUUUCUUCGUCCUGAUUGUGCCAUUUUAAUUAAAGCACGG
.....((((((((((((............(((((.....))))).....((((....)))).))))))))))))((((.............)))).. ( -27.92, z-score =  -2.32, R)
>droSec1.super_3 5984481 97 + 7220098
AUGCUGAUUAGGAUGUAACGGAACGGAAUGUCGAAGACAUCGACGCACAGGAGGCGACUUUCUUCGUCCUGAUUGUGCCAUUUUAAUUAAAGCACGA
.((((((((((((((..............(((((.....)))))((((((.((((((......))).)))..))))))))))))))))..))))... ( -30.20, z-score =  -2.47, R)
>droSim1.chr2L 10362176 97 + 22036055
AUGCUGAUUAGGAUGGAACGGAACGGAAUGUCGAAGAUAUCGACGCACGGAAGGCGACUUUCUUCGUCCUGAUUGUGCCAUUUUAAUUAAAGCACAG
.(((((((((((((((..(((.(((((..(((((.....)))))....(((((....)))))))))).)))......)))))))))))..))))... ( -31.40, z-score =  -3.13, R)
>consensus
AUGCUGAUUAGGAUGGAACGAAACGGAAUGUCGAAGAUAUCGACGCACAGGAGGCGACUUUCUUCGUCCUGAUUGUGCCAUUUUAAUUAAAGCACGG
.((((((((((((((..............(((((.....)))))((((((.((((((......))).)))..))))))))))))))))..))))... (-25.62 = -26.30 +   0.68)

alignment

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secondary structure

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dotplot

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Window 8

Location 10,558,299 – 10,558,396
Length 97
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 90.93
Shannon entropy 0.16223
G+C content 0.45843
Mean single sequence MFE -23.72
Consensus MFE -21.18
Energy contribution -21.58
Covariance contribution 0.40
Combinations/Pair 1.07
Mean z-score -2.21
Structure conservation index 0.89
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.72
SVM RNA-class probability 0.963245
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 10558299 97 - 23011544
CCGUGCUUUAAUUAAAAUGGCACAAUCAGGACGAAGAAAGUCGCCUCCUGUCCGUCGAUAUCUUCGACAUUCCGUUUCGUUCCAUCCUAAUCAGCAU
..(((((...((((..((((.((...((((((((......)))..)))))...(((((.....)))))..........)).))))..)))).))))) ( -24.70, z-score =  -3.09, R)
>droEre2.scaffold_4929 11771928 92 + 26641161
CCGAGCUUUAAUUAAAAUGGCACAAUCAGGACAAAGAAAGUCGCCUCCUGUGCGUCGAUAUCUUCGACGUUC-----UCCUCCGUCCUAAUCAGCAU
....(((...((((..((((......(((((....(.....)...))))).(((((((.....)))))))..-----....))))..)))).))).. ( -20.80, z-score =  -1.67, R)
>droYak2.chr2L 6967551 97 - 22324452
CCGUGCUUUAAUUAAAAUGGCACAAUCAGGACGAAGAAAGUCGCCUCCUGUGUGUCGAUAUCUUCGACGUUCCGUUUCGUUCCGUCCUAAUCAGCAU
..(((((...((((..((((.((...((((((((......)))..)))))...(((((.....)))))..........)).))))..)))).))))) ( -24.00, z-score =  -1.83, R)
>droSec1.super_3 5984481 97 - 7220098
UCGUGCUUUAAUUAAAAUGGCACAAUCAGGACGAAGAAAGUCGCCUCCUGUGCGUCGAUGUCUUCGACAUUCCGUUCCGUUACAUCCUAAUCAGCAU
..(((((...((((..((((((((...(((.(((......))))))..)))))(((((.....)))))..............)))..)))).))))) ( -25.60, z-score =  -2.37, R)
>droSim1.chr2L 10362176 97 - 22036055
CUGUGCUUUAAUUAAAAUGGCACAAUCAGGACGAAGAAAGUCGCCUUCCGUGCGUCGAUAUCUUCGACAUUCCGUUCCGUUCCAUCCUAAUCAGCAU
..(((((...((((..(((((((....(((.(((......))))))...))))(((((.....)))))..............)))..)))).))))) ( -23.50, z-score =  -2.10, R)
>consensus
CCGUGCUUUAAUUAAAAUGGCACAAUCAGGACGAAGAAAGUCGCCUCCUGUGCGUCGAUAUCUUCGACAUUCCGUUCCGUUCCAUCCUAAUCAGCAU
..(((((...((((..((((((((...(((.(((......))))))..)))))(((((.....)))))..............)))..)))).))))) (-21.18 = -21.58 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:30:31 2011