Locus 8839

Sequence ID dm3.chr3R
Location 2,041,848 – 2,041,924
Length 76
Max. P 0.938187
window12133

overview

Window 3

Location 2,041,848 – 2,041,924
Length 76
Sequences 4
Columns 87
Reading direction reverse
Mean pairwise identity 67.48
Shannon entropy 0.49141
G+C content 0.50406
Mean single sequence MFE -21.25
Consensus MFE -11.48
Energy contribution -10.35
Covariance contribution -1.13
Combinations/Pair 1.50
Mean z-score -1.86
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.44
SVM RNA-class probability 0.938187
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 2041848 76 - 27905053
UUUUGCUACUUCG-----------GCAACCUUUUUCCGGACUUCCAGGACAUUUCCUUACCGUAACGGUGCCAUCGCGCCGUUUGCU
..(((((.....)-----------))))......(((((....)).)))............((((((((((....)))))).)))). ( -20.30, z-score =  -2.02, R)
>droSim1.chr3R 2057861 76 - 27517382
UUUUGCUACUUCG-----------GCAACCCUUUUCCAAACAUCUAGGACAUUUCCUUACCGUAACGGUGCCAUCGCGCCGUUUGCU
..(((((.....)-----------)))).................((((....))))....((((((((((....)))))).)))). ( -18.20, z-score =  -2.29, R)
>droSec1.super_6 2128067 76 - 4358794
UUUUGCUACUUCG-----------GCAACACUUUUCCAAACAUCCAGGACAUUUCCUUACCGUAACGGUGCCAUCGCGCCGUUUGCU
..(((((.....)-----------)))).................((((....))))....((((((((((....)))))).)))). ( -18.30, z-score =  -2.31, R)
>droMoj3.scaffold_6540 11305230 85 - 34148556
UCUUAGCAUGUCGAGGGGGCAAGUGCAAAACUUGUUUGACCUUACCGAGUUGUCACUU-CCGUUCUGA-GUGGGCGUGGCACGUGCU
....(((((((.((((.(((((((.....)))))))...))))........(((((.(-(((......-.)))).)))))))))))) ( -28.20, z-score =  -0.82, R)
>consensus
UUUUGCUACUUCG___________GCAACACUUUUCCAAACAUCCAGGACAUUUCCUUACCGUAACGGUGCCAUCGCGCCGUUUGCU
........................(((.......(((.........)))..............((((((((....))))))))))). (-11.48 = -10.35 +  -1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:53:08 2011