Locus 9019

Sequence ID	dm3.chr3R
Location	3,476,976 – 3,477,047
Length	71
Max. P	0.500000

overview

Window 3

Location	3,476,976 – 3,477,047
Length	71
Sequences	4
Columns	84
Reading direction	forward
Mean pairwise identity	63.16
Shannon entropy	0.57108
G+C content	0.29958
Mean single sequence MFE	-11.80
Consensus MFE	-6.70
Energy contribution	-8.21
Covariance contribution	1.50
Combinations/Pair	1.28
Mean z-score	-0.62
Structure conservation index	0.57
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.01
SVM RNA-class probability	0.500000
Prediction	OTHER
WARNING	Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chr3R 3476976 71 + 27905053
-------UUUGAAAAUGUUACAGAUUCCACGCUUAUUUAUGGCGAA------UAUAAUUAUAAUUAAAUGUGGAGGCAUGAGGC
-------.........((..((..(((((((.(((.((((((....------.....)))))).))).)))))))...))..)) ( -12.60, z-score =  -1.00, R)
>droSec1.super_6 3568416 65 + 4358794
-------UUUGCAAAUUUUAGCACUUCCAUGCUUAUUUAUAGCGAA------UAUAAGUAUAAUUAAAUAUGGAAGCA------
-------..(((........)))((((((((.(((.(((((.(...------.....)))))).))).))))))))..------ ( -14.30, z-score =  -1.71, R)
>droYak2.chr3R_random 1085817 71 + 3277457
-----------CUAGACUUAGCGCUUAGAUAUUACUUUAAAGCGAACCACUUUAUAAGUAUUAUUAAAUAUUGAGGCAGAAA--
-----------.........((.((((((((.((((((((((.......))))).))))).))))......)))))).....-- ( -10.30, z-score =  -0.58, R)
>droEre2.scaffold_4770 3736675 82 + 17746568
CCCGCAAAUUGCAAUUCUAA--GAUUGGAUGUUAAUUUAUGGCGAACAACUUUAUAAGUAUAAUUAAAUAUUGAGGCAGAAGGA
.((((.....))..((((..--..(((..(((((.....)))))..)))(((.(((..((....))..))).)))..)))))). ( -10.00, z-score =   0.79, R)
>consensus
_______UUUGCAAAUCUUAGCGAUUCCAUGCUAAUUUAUAGCGAA______UAUAAGUAUAAUUAAAUAUGGAGGCAGAAG__
......................(((((((((((((.(((((.................))))).)))))))))))))....... ( -6.70 =  -8.21 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:56:36 2011