Locus 11323

Sequence ID dm3.chr3R
Location 20,322,381 – 20,322,484
Length 103
Max. P 0.962966
window15575 window15576

overview

Window 5

Location 20,322,381 – 20,322,484
Length 103
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 78.11
Shannon entropy 0.29177
G+C content 0.57018
Mean single sequence MFE -35.70
Consensus MFE -24.30
Energy contribution -25.63
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -2.53
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.71
SVM RNA-class probability 0.962966
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 20322381 103 + 27905053
ACCGACCCACUGUCUCCUCUUCCCGCUCCACACAAAACGCUCUUGCAGCUGAAUGAGUGACUUGCAAACAAGCAGUAUCAGGAGCAGGAUCAGGAGCGGGAGC
...(((.....))).....((((((((((.........(((((((..((((..((..((.....))..))..))))..))))))).......)))))))))). ( -35.79, z-score =  -2.02, R)
>droSec1.super_0 20658171 91 + 21120651
ACCGACCCACUGUCUCCUCUUCCCGCUCCAGACAAAGCGCUCUUGCAGCGCUGUGAGUGACUUGCAAACAAGCAGGAUCAGGAGCGGGAAC------------
...(((.....))).....((((((((((...((.((((((.....)))))).))..((((((((......))))).))))))))))))).------------ ( -39.80, z-score =  -3.93, R)
>droEre2.scaffold_4820 2733140 87 - 10470090
----GGCCACUGUCUCCUGUUCCCGCUCCAGACAAAGCGCCCUUGCAGUUGAAUGAGUGACUUGCAAAUAAGCCGGAUCAGGAGCGGGAGC------------
----(((....)))....(((((((((((.(((...((....((((((((........))).)))))....))..).)).)))))))))))------------ ( -31.50, z-score =  -1.63, R)
>consensus
ACCGACCCACUGUCUCCUCUUCCCGCUCCAGACAAAGCGCUCUUGCAGCUGAAUGAGUGACUUGCAAACAAGCAGGAUCAGGAGCGGGAAC____________
....................(((((((((........(((((............))))).(((((......)))))....))))))))).............. (-24.30 = -25.63 +   1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 20,322,381 – 20,322,484
Length 103
Sequences 3
Columns 103
Reading direction reverse
Mean pairwise identity 78.11
Shannon entropy 0.29177
G+C content 0.57018
Mean single sequence MFE -36.53
Consensus MFE -29.26
Energy contribution -28.93
Covariance contribution -0.33
Combinations/Pair 1.13
Mean z-score -1.37
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.42
SVM RNA-class probability 0.689302
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 20322381 103 - 27905053
GCUCCCGCUCCUGAUCCUGCUCCUGAUACUGCUUGUUUGCAAGUCACUCAUUCAGCUGCAAGAGCGUUUUGUGUGGAGCGGGAAGAGGAGACAGUGGGUCGGU
((((((((((((..(((((((((.......(((((....))))).((.((....(((.....)))....)).)))))))))))..))))....)))))..))) ( -38.40, z-score =  -0.94, R)
>droSec1.super_0 20658171 91 - 21120651
------------GUUCCCGCUCCUGAUCCUGCUUGUUUGCAAGUCACUCACAGCGCUGCAAGAGCGCUUUGUCUGGAGCGGGAAGAGGAGACAGUGGGUCGGU
------------.((((((((((.((....(((((....)))))....((.((((((.....)))))).)))).)))))))))).....(((.....)))... ( -37.60, z-score =  -1.41, R)
>droEre2.scaffold_4820 2733140 87 + 10470090
------------GCUCCCGCUCCUGAUCCGGCUUAUUUGCAAGUCACUCAUUCAACUGCAAGGGCGCUUUGUCUGGAGCGGGAACAGGAGACAGUGGCC----
------------(((((((((((.(((..(((...((((((.((..........))))))))...)))..))).)))))))))...(....)....)).---- ( -33.60, z-score =  -1.75, R)
>consensus
____________GAUCCCGCUCCUGAUCCUGCUUGUUUGCAAGUCACUCAUUCAGCUGCAAGAGCGCUUUGUCUGGAGCGGGAAGAGGAGACAGUGGGUCGGU
..............(((((((((.(((...((...((((((.((..........))))))))...))...))).)))))))))...(....)........... (-29.26 = -28.93 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:40:52 2011