Locus 829

Sequence ID dm3.chr2L
Location 6,056,194 – 6,056,300
Length 106
Max. P 0.681569
window1125

overview

Window 5

Location 6,056,194 – 6,056,300
Length 106
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 88.89
Shannon entropy 0.15305
G+C content 0.34969
Mean single sequence MFE -29.50
Consensus MFE -21.28
Energy contribution -23.50
Covariance contribution 2.22
Combinations/Pair 1.03
Mean z-score -2.26
Structure conservation index 0.72
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.40
SVM RNA-class probability 0.681569
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 6056194 106 - 23011544
AGUAAAUUUUGCUUCAUUAAAAUCGGAUGACUGUAGAAUUGGGCA-------------GAGCGUUAACGAGAUGUUGAAGCCAUUUCCGGUUUCAUAUU-AAAUUUUUAACUGCCUUGAU
....((((((((.(((((.......)))))..))))))))(((((-------------(((((((.....))))))((((((......)))))).....-..........)))))).... ( -28.30, z-score =  -2.67, R)
>droSec1.super_5 4127055 120 - 5866729
CGUAAAUUUUGCUUCAUUAAAAUCGGAUGACUGUAGAAUUGGGCAGUAUUUUUGGAAAGAGCGUUAACGAGCUUUCGUAGCCAUUUCCGGUUUCAUACUAAAAUUUUUAACUGCCUUGAU
....((((((((.(((((.......)))))..))))))))(((((((.......(((((..((....))..)))))(.((((......)))).)...............))))))).... ( -30.60, z-score =  -2.17, R)
>droSim1.chr2L 5844953 120 - 22036055
AGUAAAUUUUGCUUCAUUAAAAUCGGAUGACUGUAGAAUUGGGCAGUAUUUUUGGAAAGAGCGUUAACGAGCUUUUGUAGCCAUUUCCGGUUUCAUACUAAAAUUUUUAACUGCCUUGAU
....((((((((.(((((.......)))))..))))))))(((((((..((((((.((((((........))))))(.((((......)))).)...))))))......))))))).... ( -29.60, z-score =  -1.94, R)
>consensus
AGUAAAUUUUGCUUCAUUAAAAUCGGAUGACUGUAGAAUUGGGCAGUAUUUUUGGAAAGAGCGUUAACGAGCUUUUGUAGCCAUUUCCGGUUUCAUACUAAAAUUUUUAACUGCCUUGAU
....((((((((.(((((.......)))))..))))))))(((((((.......(((((..((....))..)))))(.((((......)))).)...............))))))).... (-21.28 = -23.50 +   2.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:20:20 2011