Locus 4285

Sequence ID dm3.chr2R
Location 11,947,538 – 11,947,637
Length 99
Max. P 0.991111
window5871

overview

Window 1

Location 11,947,538 – 11,947,637
Length 99
Sequences 4
Columns 106
Reading direction reverse
Mean pairwise identity 85.01
Shannon entropy 0.23335
G+C content 0.55773
Mean single sequence MFE -39.03
Consensus MFE -30.12
Energy contribution -31.75
Covariance contribution 1.62
Combinations/Pair 1.10
Mean z-score -2.99
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.46
SVM RNA-class probability 0.991111
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 11947538 99 - 21146708
AAGCAAAGAGCUUGGGCAAACAGUAGAAGCAUCAGUGGAGGCAUCGGCUUGGGCUUCGGAUCGGGUUUGGUUAUCGGCCGGAAG-------GGCUGUUUGUCCGUC
((((.....))))(((((((((((.(((((...(((.((....)).)))...)))))...((.((((........)))).))..-------.)))))))))))... ( -38.10, z-score =  -2.91, R)
>droYak2.chr2R 4104220 97 + 21139217
AAGCAAAGAGCUUGGGCAAACAGUAGAAGCAUCAAUGGAGG---------AGGCAUCGGCUUGGGUUUGGUUAUCGGCCGGAAGGGCUUACGGCUGUUUGUCCGUC
((((.....))))(((((((((((..(((((((((......---------((((....))))....)))))......((....))))))...)))))))))))... ( -34.20, z-score =  -2.23, R)
>droSec1.super_1 9446333 94 - 14215200
AAGCAAAGAGCUUGGGCAAACAGUAGAAGCAUCA---GCGC---------AGGCAUCGGAUCGGGCUUGGUUAUCGGCCGGAAGGGCUUACGGCUGUUUGUCCGUC
((((.....))))(((((((((((..((((...(---((.(---------((((.(((...))))))))))).....((....))))))...)))))))))))... ( -38.50, z-score =  -3.36, R)
>droSim1.chr2R 10685295 106 - 19596830
AAGCAAAGAGCUUGGGCAAACAGUAGAAGCAUCAGCGGAGGCAUCGGCUUGGGCUUCGGAUCGGGCUUGGUUAUCGGCCGGAAGGGCUUACGGCUGUUUGUCCGUC
((((.....))))(((((((((((..((((.....(((..((...((((((..(....)..))))))..))..))).((....))))))...)))))))))))... ( -45.30, z-score =  -3.47, R)
>consensus
AAGCAAAGAGCUUGGGCAAACAGUAGAAGCAUCAGUGGAGG_________AGGCAUCGGAUCGGGCUUGGUUAUCGGCCGGAAGGGCUUACGGCUGUUUGUCCGUC
((((.....))))(((((((((((.(((((...(((.(......).)))...)))))...((.((((........)))).))..........)))))))))))... (-30.12 = -31.75 +   1.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:26:13 2011