Locus 3256

Sequence ID dm3.chr2R
Location 3,790,664 – 3,790,764
Length 100
Max. P 0.558336
window4482

overview

Window 2

Location 3,790,664 – 3,790,764
Length 100
Sequences 5
Columns 101
Reading direction reverse
Mean pairwise identity 84.08
Shannon entropy 0.25964
G+C content 0.48541
Mean single sequence MFE -25.90
Consensus MFE -20.68
Energy contribution -20.68
Covariance contribution -0.00
Combinations/Pair 1.17
Mean z-score -1.34
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.13
SVM RNA-class probability 0.558336
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 3790664 100 - 21146708
GGACAUGCGGACAUGCGGACGGGCGGAC-GAUUAUAGACCGUUAGCAAACACCAUAGUGUGGCUGCUAAUUGUUGUUGACUGCUUGCCAAGACAAAUUACA
.(.((((....)))))((.(((((((.(-(((....(((.(((((((..(((......)))..))))))).))))))).)))))))))............. ( -29.90, z-score =  -1.59, R)
>droSim1.chr2R_random 1025248 85 - 2996586
----------------GGACAGGCGGACGGAUUAUAGACCGUUAGCAAACACCAUCGUGUGGCUGCUAAUUGUUGUUGACUGCUUGCCAAGACAAAUUACA
----------------((.(((((((.(((......(((.(((((((..(((......)))..))))))).))).))).)))))))))............. ( -26.80, z-score =  -2.29, R)
>droSec1.super_1 1427154 85 - 14215200
----------------GGACAGGCGGACGGAUUAUAGACCGUUAGCAAACACCAUCGUGUGGCUGCUAAUUGUUGUUGACUGCUUGCCAAGACAAAUUACA
----------------((.(((((((.(((......(((.(((((((..(((......)))..))))))).))).))).)))))))))............. ( -26.80, z-score =  -2.29, R)
>droYak2.chr2L 16447731 100 - 22324452
GGACAUGCGGAUUAGAGGACAAGCGGAC-GAUUAUGGACCGUUAGCAAACACCAUCGUGUGGCCGCUAAUUUCUGUUGACUGCUUGCCAAGACAAAUUACG
................((.(((((((.(-(((...(((..((((((..((((....))))....))))))))).)))).)))))))))............. ( -25.40, z-score =  -0.72, R)
>droEre2.scaffold_4929 7804546 85 + 26641161
---------------CGGACGGGCGUAC-GAUUAUAGACCGUUAGCAAACACCAUCGUGUGGCCGCUAAUUGCUGCUGACUGCUUGCCAAGACAAAUUACA
---------------.((.(((((((.(-.......))).(((((((.((((....))))....((.....))))))))).)))))))............. ( -20.60, z-score =   0.20, R)
>consensus
________________GGACAGGCGGAC_GAUUAUAGACCGUUAGCAAACACCAUCGUGUGGCUGCUAAUUGUUGUUGACUGCUUGCCAAGACAAAUUACA
................((.(((((((.......((((...(((((((.((((....))))...)))))))..))))...)))))))))............. (-20.68 = -20.68 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:06:48 2011