Locus 4647

Sequence ID dm3.chr2R
Location 14,850,874 – 14,850,984
Length 110
Max. P 0.831035
window6381

overview

Window 1

Location 14,850,874 – 14,850,984
Length 110
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 72.68
Shannon entropy 0.38298
G+C content 0.28840
Mean single sequence MFE -16.21
Consensus MFE -12.58
Energy contribution -10.14
Covariance contribution -2.43
Combinations/Pair 1.35
Mean z-score -1.29
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.84
SVM RNA-class probability 0.831035
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 14850874 110 + 21146708
----GUUGUUGCAUGCGCAUCACUUUGUAAUUUAUAUCCAAUAAUGAAGGAUUAAGUAACAGAAGGUA----AUCACUUUUAUAAAUAAAGUGUAGCAAC-ACUUGAAGAACCACUUUC
----..((((((.(((((.......(((.(((((.((((.........))))))))).)))((((((.----...)))))).........))))))))))-)................. ( -22.50, z-score =  -1.62, R)
>droSim1.chr2R 13549583 117 + 19596830
GUAUGGUGUUAGAAUCUCAUCAUGUUUU--UUUACAAUCAAUUAUAACAGAUUAUGUAUAAGAAGCUAACCAACCACUUUCAUAUAAAAAAUCUAACAUCCAUUUAAUUAACAACUUUC
..(((((((((((..........(((((--(((((((((..........)))..)))).)))))))...........(((......)))..))))))).))))................ ( -14.10, z-score =  -1.06, R)
>droSec1.super_1 12356923 117 + 14215200
GAACGGUGUUAGAAUCUCAUCAUGUUUU--CUUACAAUCAAUUAUAACAGAUUAUAUACAAGAAGCUAGCCAACCACUUUCAUAUAAAAAAUCUAACAUCCAUUUAACUAACAACUUUC
....(((((((((.........(((...--...)))...............((((((..(((..............)))..))))))....)))))))))................... ( -12.04, z-score =  -1.18, R)
>consensus
G_A_GGUGUUAGAAUCUCAUCAUGUUUU__UUUACAAUCAAUUAUAACAGAUUAUGUAAAAGAAGCUA_CCAACCACUUUCAUAUAAAAAAUCUAACAUCCAUUUAAAUAACAACUUUC
....(((((((((.....(((.((((...................))))))).........((((...........))))...........)))))))))................... (-12.58 = -10.14 +  -2.43)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:33:20 2011