Locus 13293

Sequence ID dm3.chrX
Location 5,649,065 – 5,649,171
Length 106
Max. P 0.939043
window18289 window18290

overview

Window 9

Location 5,649,065 – 5,649,171
Length 106
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 95.75
Shannon entropy 0.06888
G+C content 0.32783
Mean single sequence MFE -25.60
Consensus MFE -22.85
Energy contribution -23.10
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.34
Structure conservation index 0.89
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.45
SVM RNA-class probability 0.939043
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 5649065 106 + 22422827
CCGCCAAGCCAGUGCUAGAAAGCACCAGGAAGUAUAAAACAACUGAUAUUUUUGGUAAACAAAGAACUGUUGUUAUUGCUUUUCCUGGUUUUAUUAAUAGAAGUUA
.....(((((.(((((....))))).((((((..(((((((((.....((((((.....))))))...)))))).)))..)))))))))))............... ( -25.00, z-score =  -1.74, R)
>droSim1.chrX 4388332 106 + 17042790
CCGAUAAGCCAGUGCUAGAAAGCACCAGGAAGUAUAAAACAACUCAUAUUUUUGGUAAACAAAGAACUGUUGUUAUUGCUUUUCCUGGUUUUAUUUAUAGAAGUUA
..((((((.(.(((((....)))))(((((((..(((((((((.....((((((.....))))))...)))))).)))..)))))))).))))))........... ( -25.00, z-score =  -2.10, R)
>droSec1.super_4 5064156 106 - 6179234
CCGAUAAGCCAGUGCUAGAAAGCACCAGGAAGUAUAAAACAACUCAUAUUUUUGGUAAACAAAGAACUGUUGUUAUUGCUUUUCCUGGUUUUAUUUAUAGAAGUUA
..((((((.(.(((((....)))))(((((((..(((((((((.....((((((.....))))))...)))))).)))..)))))))).))))))........... ( -25.00, z-score =  -2.10, R)
>droEre2.scaffold_4690 2997867 106 + 18748788
CCGAUAAGACAGUGCUAUAAAACACCAGGAAGUAUAAAACAACUCAUAUUUUUGGUAAACAAAGAACUGUUGUUGUUGCUUUUCCUGGUUUUAUUUAUAGAAUUUA
..............(((((((..(((((((((((...((((((.....((((((.....))))))...))))))..))))..)))))))....)))))))...... ( -27.40, z-score =  -3.42, R)
>consensus
CCGAUAAGCCAGUGCUAGAAAGCACCAGGAAGUAUAAAACAACUCAUAUUUUUGGUAAACAAAGAACUGUUGUUAUUGCUUUUCCUGGUUUUAUUUAUAGAAGUUA
..............(((.(((..(((((((((..(((((((((.....((((((.....))))))...)))))).)))..)))))))))....))).)))...... (-22.85 = -23.10 +   0.25)

alignment

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secondary structure

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dotplot

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Window 0

Location 5,649,065 – 5,649,171
Length 106
Sequences 4
Columns 106
Reading direction reverse
Mean pairwise identity 95.75
Shannon entropy 0.06888
G+C content 0.32783
Mean single sequence MFE -21.30
Consensus MFE -19.16
Energy contribution -18.98
Covariance contribution -0.19
Combinations/Pair 1.04
Mean z-score -1.76
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.64
SVM RNA-class probability 0.773029
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 5649065 106 - 22422827
UAACUUCUAUUAAUAAAACCAGGAAAAGCAAUAACAACAGUUCUUUGUUUACCAAAAAUAUCAGUUGUUUUAUACUUCCUGGUGCUUUCUAGCACUGGCUUGGCGG
.................((((((((((((((.(((....)))..))))))....((((((.....))))))....))))))))(((....(((....))).))).. ( -22.60, z-score =  -1.67, R)
>droSim1.chrX 4388332 106 - 17042790
UAACUUCUAUAAAUAAAACCAGGAAAAGCAAUAACAACAGUUCUUUGUUUACCAAAAAUAUGAGUUGUUUUAUACUUCCUGGUGCUUUCUAGCACUGGCUUAUCGG
.................((((((((((((((.(((....)))..))))))....((((((.....))))))....))))))))(((....)))............. ( -19.80, z-score =  -1.27, R)
>droSec1.super_4 5064156 106 + 6179234
UAACUUCUAUAAAUAAAACCAGGAAAAGCAAUAACAACAGUUCUUUGUUUACCAAAAAUAUGAGUUGUUUUAUACUUCCUGGUGCUUUCUAGCACUGGCUUAUCGG
.................((((((((((((((.(((....)))..))))))....((((((.....))))))....))))))))(((....)))............. ( -19.80, z-score =  -1.27, R)
>droEre2.scaffold_4690 2997867 106 - 18748788
UAAAUUCUAUAAAUAAAACCAGGAAAAGCAACAACAACAGUUCUUUGUUUACCAAAAAUAUGAGUUGUUUUAUACUUCCUGGUGUUUUAUAGCACUGUCUUAUCGG
......(((((((....(((((((((((((((...(((((....)))))...((......)).))))))).....))))))))..)))))))..(((......))) ( -23.00, z-score =  -2.82, R)
>consensus
UAACUUCUAUAAAUAAAACCAGGAAAAGCAAUAACAACAGUUCUUUGUUUACCAAAAAUAUGAGUUGUUUUAUACUUCCUGGUGCUUUCUAGCACUGGCUUAUCGG
.................((((((((((((((.(((....)))..))))))....((((((.....))))))....))))))))(((....)))............. (-19.16 = -18.98 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:18:29 2011