Locus 3360

Sequence ID dm3.chr2R
Location 4,632,093 – 4,632,211
Length 118
Max. P 0.607033
window4622

overview

Window 2

Location 4,632,093 – 4,632,211
Length 118
Sequences 3
Columns 118
Reading direction reverse
Mean pairwise identity 88.86
Shannon entropy 0.15351
G+C content 0.32957
Mean single sequence MFE -22.59
Consensus MFE -21.40
Energy contribution -21.30
Covariance contribution -0.10
Combinations/Pair 1.16
Mean z-score -0.97
Structure conservation index 0.95
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.24
SVM RNA-class probability 0.607033
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 4632093 118 - 21146708
UAUGGUAACAUUGUGUCAUUACAAGUAGUCUGGUCUAUGUUCCUUUUUAAUGGAAUUGGCAAAUGGAAAACUUUUUAAUGACCGUCGCCUGUCUGAUUUAUCUAAUUAAAUAUCUUGU
...((..((...(.(((((((.((((..(((.(((...(((((........))))).)))....)))..))))..))))))))))..))......(((((......)))))....... ( -23.00, z-score =  -1.17, R)
>droSec1.super_1 2276436 114 - 14215200
UAUGGUAACAUUGUGUCAUUGCAAGUAGUCCAGUUUAUGUUUCUUUUUAAUGGAUUUGACGAAUGGAAAACUUUUUAAUGUCCGUCGCCUGUCUGAUU----UAAUCAGAUAUCUUGU
...((..((...(.(.(((((.((((..((((.........(((.......))).........))))..))))..))))).))))..))((((((((.----..))))))))...... ( -21.27, z-score =  -0.33, R)
>droSim1.chr2R 3319934 114 - 19596830
UAUGGUAACAUUGUAUCAUUACAAGUACUCCAGUUUAAGCUCCUUUUUAAUGGAUUUGUCGAAUGGAAAACUUUUUAAUGACCGUCGCCUGUCUGAUU----UAAUCAGAUAUCUUGU
...((..((......((((((.((((..((((...((((.(((........))))))).....))))..))))..))))))..))..))((((((((.----..))))))))...... ( -23.50, z-score =  -1.41, R)
>consensus
UAUGGUAACAUUGUGUCAUUACAAGUAGUCCAGUUUAUGUUCCUUUUUAAUGGAUUUGACGAAUGGAAAACUUUUUAAUGACCGUCGCCUGUCUGAUU____UAAUCAGAUAUCUUGU
...((..((.....(((((((.((((..((((........(((........))).........))))..))))..))))))).))..))(((((((((.....)))))))))...... (-21.40 = -21.30 +  -0.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:08:44 2011