Locus 1688

Sequence ID dm3.chr2L
Location 13,032,820 – 13,032,916
Length 96
Max. P 0.754330
window2307

overview

Window 7

Location 13,032,820 – 13,032,916
Length 96
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 91.49
Shannon entropy 0.13718
G+C content 0.52865
Mean single sequence MFE -29.93
Consensus MFE -27.66
Energy contribution -27.34
Covariance contribution -0.31
Combinations/Pair 1.11
Mean z-score -1.40
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.59
SVM RNA-class probability 0.754330
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 13032820 96 + 23011544
GGGUGGCUGCAGGGCUGGCAGGACAACAUGCACAACAGUCACUGUUGGCGAUCACUGGACGGAAGAACACACUCCAAAUUAAUUUAACCUGGGGUC
....((((.((((((..(((((((.............))).))))..))......(((((....).......))))...........)))).)))) ( -28.63, z-score =  -1.27, R)
>droSim1.chr2L 12823140 96 + 22036055
GGGUGGCUGCAGGGCUGGCAGUACAACAUGCACAACAGUCACUGUUAGCGAUCACUGGACGGAAGGACACACUCCAUAUUCAUUUAACAUGGGGUC
.(((.(((((((((((((((........)))....))))).))).)))).)))..((..(....)..)).(((((((...........))))))). ( -30.40, z-score =  -2.29, R)
>droSec1.super_16 1188754 96 + 1878335
GGGUGGCUGCAGGGCUGGCAGUACAAGAUGCACAACAGUCACUGUUAGCGAUCACUGGACGGAAGGACACACUCCAUAUUAAUUUAACCUGAGGUU
((((((((((((((((((((........)))....))))).))).))))......((..(....)..))))).))..........((((...)))) ( -27.00, z-score =  -0.93, R)
>droYak2.chr2L 9452812 96 + 22324452
GGGUGGCUGCAGGGCUGGCAGGACAGCAUGCUCGGUAGUCACUGUUAGCGAUCUCUGGACGGAAGGACACACCCCAUAUUAAUUUAACCUGGGGUC
.(((((((((.((((..((......))..)))).)))))))))............((..(....)..)).((((((..(((...)))..)))))). ( -33.70, z-score =  -1.10, R)
>consensus
GGGUGGCUGCAGGGCUGGCAGGACAACAUGCACAACAGUCACUGUUAGCGAUCACUGGACGGAAGGACACACUCCAUAUUAAUUUAACCUGGGGUC
.(((.(((((((((((((((........)))....))))).))).)))).)))..((..(....)..)).((((((.............)))))). (-27.66 = -27.34 +  -0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:36:43 2011