Locus 5660

Sequence ID dm3.chr3L
Location 315,671 – 315,791
Length 120
Max. P 0.814651
window7779

overview

Window 9

Location 315,671 – 315,791
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 90.00
Shannon entropy 0.13774
G+C content 0.40278
Mean single sequence MFE -31.57
Consensus MFE -22.56
Energy contribution -22.01
Covariance contribution -0.55
Combinations/Pair 1.13
Mean z-score -2.57
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.78
SVM RNA-class probability 0.814651
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 315671 120 + 24543557
CCAGCGGGCAGUUAGCAUCGUCAGUUUUUGCGUAUUCGUAAAAAUUGAACAGUGCACCACGUCGAUUCUUAACAUGAAGUUUCUGUUUAACUUAUUCGUCAGGUUUCUUACGCUGUUUUG
.((((((((.((..((((..((((((((((((....))))))))))))...))))...)))))((..(((.((...(((((.......)))))....)).)))..))...)))))..... ( -33.60, z-score =  -3.26, R)
>droSec1.super_2 347467 120 + 7591821
CUGACAGGCAGGCUGCAUCAUCAAUUGUUGCGUAUUCGUAAAAAUUGAACAGUGCACCACAUCGAUUCUUAACAUGCAGUUUCUGUUUAACUUAUUCGUCAGGUUUCUUUCGCUGUUUUC
((((((((((((((((((..((((((.(((((....))))).))))))...(((...))).............)))))))..)))))).........))))).................. ( -27.40, z-score =  -1.37, R)
>droSim1.chr2R 8541504 120 + 19596830
CUGACAGGCAGGCUGCAUUGUCAAUUGUUGCGUAUUCGUAAAAAUUGAACAGUGCACCACAUCGAUUCUUAUCAUGCAGUUUCUGUGUAACUUAUUCGUCAGGUUUCUUUCACUGUUUUC
(((((.....((.(((((((((((((.(((((....))))).))))).))))))))))((((.((..((........))..)).)))).........))))).................. ( -33.70, z-score =  -3.10, R)
>consensus
CUGACAGGCAGGCUGCAUCGUCAAUUGUUGCGUAUUCGUAAAAAUUGAACAGUGCACCACAUCGAUUCUUAACAUGCAGUUUCUGUUUAACUUAUUCGUCAGGUUUCUUUCGCUGUUUUC
..(((((.......((((..((((((.(((((....))))).))))))...))))(((....(((..........((((...)))).........)))...)))........)))))... (-22.56 = -22.01 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:52:43 2011