Locus 12240

Sequence ID dm3.chr3R
Location 26,716,488 – 26,716,541
Length 53
Max. P 0.885220
window16835

overview

Window 5

Location 26,716,488 – 26,716,541
Length 53
Sequences 6
Columns 61
Reading direction reverse
Mean pairwise identity 87.78
Shannon entropy 0.21315
G+C content 0.49433
Mean single sequence MFE -13.05
Consensus MFE -10.28
Energy contribution -10.33
Covariance contribution 0.06
Combinations/Pair 1.08
Mean z-score -2.08
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.07
SVM RNA-class probability 0.885220
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 26716488 53 - 27905053
CAAUCGCGGCAAUUAGAGUUGUUA--------CCAAUCUCUCCGCGGGUCACUCAACACAA
...((((((.....(((((((...--------.))).)))))))))).............. ( -12.50, z-score =  -2.41, R)
>droSim1.chr3R 26357421 53 - 27517382
CAAUCGCGGCAAUUAGAGUUGUUA--------CCAAUCUCUCCGCGGGUCACGCAACACAA
...((((((.....(((((((...--------.))).)))))))))).............. ( -12.50, z-score =  -1.69, R)
>droSec1.super_4 5542232 53 - 6179234
CAAUCGCGGCAAUCAGAGUUGUUA--------CCAAUCUCUCCGCGGGUCACGCAACACAA
...((((((.....(((((((...--------.))).)))))))))).............. ( -12.50, z-score =  -1.71, R)
>droYak2.chr3R 27640289 53 - 28832112
CAAUCGCGGCAAUUAGAGUUGCUA--------ACAAUCUCUCCGCGGGUCACGCAACAAAA
...((((((.....(((((((...--------.))).)))))))))).............. ( -12.60, z-score =  -1.86, R)
>droEre2.scaffold_4820 9196426 53 + 10470090
CAAUCGCGGCAAUUAGAGUUGUUA--------ACAAUCUCUCCGCGGGUCACGCAACAAAA
...((((((.....(((((((...--------.))).)))))))))).............. ( -13.40, z-score =  -2.46, R)
>droAna3.scaffold_12911 1126034 61 + 5364042
CAAUCGGGGCAAUUACUGUUGGUAACUAACCGACAAUCUCUCCUCGGGUCACGCAACAAUA
...((((((.......(((((((.....)))))))......)))))).............. ( -14.82, z-score =  -2.36, R)
>consensus
CAAUCGCGGCAAUUAGAGUUGUUA________ACAAUCUCUCCGCGGGUCACGCAACAAAA
...((((((.....(((((((............))).)))))))))).............. (-10.28 = -10.33 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:58:27 2011