Locus 9893

Sequence ID dm3.chr3R
Location 9,673,838 – 9,673,929
Length 91
Max. P 0.918858
window13593

overview

Window 3

Location 9,673,838 – 9,673,929
Length 91
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 87.00
Shannon entropy 0.21262
G+C content 0.59307
Mean single sequence MFE -35.45
Consensus MFE -24.75
Energy contribution -28.12
Covariance contribution 3.38
Combinations/Pair 1.04
Mean z-score -2.56
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.27
SVM RNA-class probability 0.918858
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 9673838 91 - 27905053
AGCCGAGGAGUCAUGAAUGAGCCGAACAGCCGGGAUCUGAAUGAAGAUGUGGGCCUGGACUCGGCUGGGCUGAAAGCCCUGGACCCGGCAA
.((((.((...........((((((.(((((.(.((((......)))).).)).)))...))))))((((.....))))....)))))).. ( -40.10, z-score =  -3.06, R)
>droSim1.chr3R 15763635 91 + 27517382
AGCCGAGGAGUCAUGAAUGAGCCGAACAGCCGGGAUCUGAAUGAAGAUGUGGGCCUGGACUUGGCUGGGCUGAAAGCCCUGGACCCGGCAA
.((((.((...........((((((.(((((.(.((((......)))).).)).)))...))))))((((.....))))....)))))).. ( -38.00, z-score =  -2.84, R)
>droSec1.super_0 8785577 91 + 21120651
AGCCGAGGAGUCAUGAAUGAGCCGAACAGCCGGGAUCUGAAUGAAGAUGUGGGCCUGGACUUGGCUGGGCUGAAAGCCCUGGACCCGGCAA
.((((.((...........((((((.(((((.(.((((......)))).).)).)))...))))))((((.....))))....)))))).. ( -38.00, z-score =  -2.84, R)
>droYak2.chr3R 13986145 74 - 28832112
AGCCGAGGAGUCAUGAAUGAGCCCAACUGCCGGGCUCUGAAUGAAGAUGUGUGCUC-----------------AAGCCCUGGACCCGGCAA
.((((.((..((((....((((((.......))))))...))))........((..-----------------..))......)))))).. ( -25.70, z-score =  -1.52, R)
>consensus
AGCCGAGGAGUCAUGAAUGAGCCGAACAGCCGGGAUCUGAAUGAAGAUGUGGGCCUGGACUUGGCUGGGCUGAAAGCCCUGGACCCGGCAA
.((((.((...........((((((.(((((.(.((((......)))).).))).))...))))))((((.....))))....)))))).. (-24.75 = -28.12 +   3.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:13:24 2011