Locus 3890

Sequence ID	dm3.chr2R
Location	8,706,570 – 8,706,632
Length	62
Max. P	0.557806

overview

Window 3

Location	8,706,570 – 8,706,632
Length	62
Sequences	5
Columns	63
Reading direction	reverse
Mean pairwise identity	84.13
Shannon entropy	0.28696
G+C content	0.26859
Mean single sequence MFE	-8.80
Consensus MFE	-4.69
Energy contribution	-4.38
Covariance contribution	-0.31
Combinations/Pair	1.33
Mean z-score	-2.27
Structure conservation index	0.53
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.13
SVM RNA-class probability	0.557806
Prediction	RNA
WARNING	Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr2R 8706570 62 - 21146708
CUCGUUUUACUCCAUUUUAAUUUAUUUAAUCGAGUUCAACCA-UUUGCAUUUGUUGCAAUCAU
...(((..((((....((((.....))))..))))..)))..-.(((((.....))))).... (  -8.90, z-score =  -3.13, R)
>droSim1.chr2R 7181447 62 - 19596830
CUCGUUUUACUUCAUUUUAAUUUAUUUAAUCGAGUUCAACCA-UUUGCAUUUGUUGCAAUCAU
...(((..((((....((((.....))))..))))..)))..-.(((((.....))))).... (  -7.10, z-score =  -1.98, R)
>droSec1.super_1 6238712 62 - 14215200
CUCGUUUUACUUCAUUUUAAUUUAUUUAAUCGAGUUCAACCA-UUUGCAUUUGUUGCAAUCAU
...(((..((((....((((.....))))..))))..)))..-.(((((.....))))).... (  -7.10, z-score =  -1.98, R)
>droEre2.scaffold_4845 5480449 59 + 22589142
---GUUUUACAUCAUUUUAAUGUAUUUAAUCGAGUUCAACAA-UUUGCAUUUGUUGCAAUCAU
---....(((((.......))))).......((...((((((-.......))))))...)).. (  -7.50, z-score =  -0.96, R)
>droPer1.super_4 4291805 60 + 7162766
UCCGUUUU-UGUUGUUUCAAUUUAAAUACUGAAA--CAAUAAUUUUGCAUUUGUUGCAAUCAU
.......(-((((((((((..........)))))--))))))..(((((.....))))).... ( -13.40, z-score =  -3.30, R)
>consensus
CUCGUUUUACUUCAUUUUAAUUUAUUUAAUCGAGUUCAACCA_UUUGCAUUUGUUGCAAUCAU
...(((..((((.(((...........))).))))..)))....(((((.....))))).... ( -4.69 =  -4.38 +  -0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:18:45 2011