Locus 3061

Sequence ID	dm3.chr2R
Location	1,937,737 – 1,937,804
Length	67
Max. P	0.632322

overview

Window 8

Location	1,937,737 – 1,937,804
Length	67
Sequences	5
Columns	70
Reading direction	forward
Mean pairwise identity	72.69
Shannon entropy	0.47772
G+C content	0.29811
Mean single sequence MFE	-11.04
Consensus MFE	-5.78
Energy contribution	-5.18
Covariance contribution	-0.60
Combinations/Pair	1.71
Mean z-score	-1.43
Structure conservation index	0.52
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.29
SVM RNA-class probability	0.632322
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 1937737 67 + 21146708
---AAUAUAAGUUGUUGAUCUUUACCUGAUCAAUGUUUUCUAUACCAGAUUGUACAUAUUUGUAACGCUG
---.(((.(((..(((((((.......)))))))..))).)))..(((....((((....))))...))) ( -11.60, z-score =  -1.90, R)
>droEre2.scaffold_4929 6249188 66 - 26641161
---AAUAUGAGU-GUUGAUCUUUACCUGAUCAGCGUUUUCAAUACAAAAUUGUACAUAUUUGUAACGCUA
---((((((...-(((((((.......)))))))........((((....)))))))))).......... ( -12.60, z-score =  -1.68, R)
>droYak2.chr2L 1773086 64 - 22324452
---AAUAUAAG---UUGAUCAUUACCUGAUCAGUGUUUUCUAUACAAAAGUGUACAUAUUUGUAACGCUA
---........---.((((((.....))))))((((.....))))...((((((((....))).))))). ( -13.00, z-score =  -2.17, R)
>droSec1.super_26 579877 67 + 826190
---CAUAUAAGCUGUUGAUCUUUACCUGAUCAAUGUUUUCCAUACCAAAUUGUACAUAUUUGUAACGCUG
---......(((.(((((((.......)))))))..................((((....))))..))). ( -11.30, z-score =  -2.11, R)
>droVir3.scaffold_12875 16024369 68 - 20611582
AAGCUAAUUAUUUGUUUGUUUUAAAAUGGAGAAUGUCUUCUAAUUCCAA--GAAUCUAUUUGCACUGAUG
..((......((..(((......)))..))(((((..((((.......)--)))..)))))))....... (  -6.70, z-score =   0.71, R)
>consensus
___AAUAUAAGUUGUUGAUCUUUACCUGAUCAAUGUUUUCUAUACCAAAUUGUACAUAUUUGUAACGCUG
.............(((((((.......))))))).................................... ( -5.78 =  -5.18 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:02:53 2011