Locus 8483

Sequence ID	dm3.chr3L
Location	23,516,398 – 23,516,464
Length	66
Max. P	0.683281

overview

Window 0

Location	23,516,398 – 23,516,464
Length	66
Sequences	5
Columns	67
Reading direction	forward
Mean pairwise identity	72.89
Shannon entropy	0.48642
G+C content	0.52247
Mean single sequence MFE	-17.70
Consensus MFE	-11.94
Energy contribution	-11.90
Covariance contribution	-0.04
Combinations/Pair	1.50
Mean z-score	-0.90
Structure conservation index	0.67
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.41
SVM RNA-class probability	0.683281
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 23516398 66 + 24543557
AUGACCAGGGUUAUUGGGGCUGUGGAGGAGACGGAGCG-AAAGAUCCAGGUGUUGCCUGAUGGCAGU
....(((.((((.....)))).))).(....)(((.(.-...).))).....(((((....))))). ( -21.50, z-score =  -1.97, R)
>droSec1.super_6 3823437 66 - 4358794
AUGACCAGGGUUAUUGAGGCUGUGGAGGAGACAGAGCA-AAAGAUCCAGGUGUUGCCUGAUGGCAGU
...(((.(((((.((...(((.((.......)).))).-)).))))).))).(((((....))))). ( -21.10, z-score =  -2.10, R)
>droYak2.chr3h_random 633908 66 + 911842
AUGACCAGGGUUAUUGAUGCUGUGGAGGAGACAGAGCA-AAAGAUCCAGGUGUUUCCUGAUGGCAGU
.((.((((((((.((..((((.((.......)).))))-)).)))))(((.....)))..))))).. ( -16.90, z-score =  -0.54, R)
>droEre2.scaffold_4784 24083619 66 + 25762168
AUGACCAGGGUUAUUCAGGCUGUGGAGGAGACAGAGCA-AAAAAUCCAGGUGUCGCCUGAUGGCAUU
...(((.(((((.((...(((.((.......)).))).-)).))))).)))...(((....)))... ( -18.60, z-score =  -0.78, R)
>dp4.chr2 12500330 58 - 30794189
---------GUGAGCGAGGUUGGUGGUGAGCGUGAGUACGGACGAUGAGGUGUUUUCUACCGUAAGC
---------....((.....((((((.(.((....)).)(((((......))))).))))))...)) ( -10.40, z-score =   0.91, R)
>consensus
AUGACCAGGGUUAUUGAGGCUGUGGAGGAGACAGAGCA_AAAGAUCCAGGUGUUGCCUGAUGGCAGU
...(((.(((((.((...(((.((.......)).)))..)).))))).))).(((((....))))). (-11.94 = -11.90 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:46:26 2011