Locus 4315

Sequence ID dm3.chr2R
Location 12,186,629 – 12,186,720
Length 91
Max. P 0.903369
window5917

overview

Window 7

Location 12,186,629 – 12,186,720
Length 91
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 80.80
Shannon entropy 0.32586
G+C content 0.58471
Mean single sequence MFE -35.90
Consensus MFE -27.96
Energy contribution -28.04
Covariance contribution 0.08
Combinations/Pair 1.33
Mean z-score -1.72
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.17
SVM RNA-class probability 0.903369
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 12186629 91 + 21146708
GCCGCUGACUGCCACUGACAGUUGGAUAAGGUUUCGACUGCGAUGUGGA----------GCUGGAGUUGGAACAGCGCGCUCUGUGAGCUCCGAACUCCAG
........((.((((...((((((((......))))))))....)))))----------)(((((((((((...((.(((...))).))))).)))))))) ( -32.10, z-score =  -0.89, R)
>droSim1.chr2R 10919067 91 + 19596830
GCCGCUGACUGCCACUGACAGUUGGAUAAGGUUUCGACUGCGAUGUGGA----------GCUGGAGUUGGAGCAGCGCGCUCUGUGCGCUCCGAACUCCAG
........((.((((...((((((((......))))))))....)))))----------)(((((((((((((.((((.....))))))))).)))))))) ( -41.00, z-score =  -2.78, R)
>droSec1.super_1 9685885 91 + 14215200
GCCGCUGACUGCCACUGACAGUUGGAUAAGGUUUCGACUGCGAUGUGGA----------GCUGGAGUUGGAGCAGCGCGCUCUGUGAGCUCCGAACUCCAG
........((.((((...((((((((......))))))))....)))))----------)(((((((((((((..(((.....))).))))).)))))))) ( -36.90, z-score =  -1.82, R)
>droYak2.chr2R 4339413 101 - 21139217
GCCGCUGACUGCCACUGACAGUUGGAUAAGGUUUCGACUGCGAUGUGGAUGGAGUUGGAGUUGGAGUUGGAGAACCACGCUCUGUGAGCUCCGAACUCCAG
...........((((...((((((((......))))))))....)))).(((((((((((((((((((((....))).)))))...)))))).))))))). ( -39.90, z-score =  -2.87, R)
>droAna3.scaffold_13266 15565150 90 + 19884421
GGCGCUGAGUGCCGCUGACAGUUGGAUAAGGUUCGAAUCGGGCAGCUGGA---------GCUGAAGCUGGAGAACCGAACUCAA--AACUCCAGGCACCGG
....(((.(((((...((...(((..(..(((((...((((.((((....---------))))...)))).)))))..)..)))--...))..)))))))) ( -29.60, z-score =  -0.23, R)
>consensus
GCCGCUGACUGCCACUGACAGUUGGAUAAGGUUUCGACUGCGAUGUGGA__________GCUGGAGUUGGAGCAGCGCGCUCUGUGAGCUCCGAACUCCAG
...........((((...((((((((......))))))))....))))............((((((((((((...(((.....)))..)))).)))))))) (-27.96 = -28.04 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:26:51 2011