Locus 7025

Sequence ID dm3.chr3L
Location 11,566,256 – 11,566,323
Length 67
Max. P 0.716531
window9670 window9671

overview

Window 0

Location 11,566,256 – 11,566,323
Length 67
Sequences 4
Columns 68
Reading direction forward
Mean pairwise identity 68.89
Shannon entropy 0.50303
G+C content 0.44889
Mean single sequence MFE -15.35
Consensus MFE -9.16
Energy contribution -9.85
Covariance contribution 0.69
Combinations/Pair 1.44
Mean z-score -1.04
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.40
SVM RNA-class probability 0.677796
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11566256 67 + 24543557
AGUUUUGUAGUCCCUGGACCGUGUUUCAUCCAU-AUCCUGUUCAAUAGGCGCCUUUUGCGGACUAUUA
......(((((((.((((..........)))).-..(((((...))))).((.....))))))))).. ( -12.90, z-score =  -0.56, R)
>droSec1.super_0 3758438 67 + 21120651
AGUUUUGUAGUCCCUGGACGGUGUUUCAUCCAU-AUCCUGUUGAAUAGGCACCUUUUGCGGACUAUUA
......(((((((.(..(.(((((((.((.((.-.......)).))))))))).)..).))))))).. ( -18.20, z-score =  -1.88, R)
>droSim1.chr3L 10941630 67 + 22553184
AGUUUUGUAGUCCCUGGACUGUGUUUCAUCCAU-AUCCUGUUGAAUGGGCACCUUUUGGGGACUAUUA
......((((((((..((..(((((.(((.((.-.......)).))))))))..))..)))))))).. ( -23.50, z-score =  -2.96, R)
>droWil1.scaffold_180698 2073893 56 + 11422946
-------UAGAUCCUUGACUCCCACCAGAUCAUCAUCCUGCU----GGUCAUCUGUACGAAACGGUU-
-------..................(((((.((((......)----))).)))))............- (  -6.80, z-score =   1.26, R)
>consensus
AGUUUUGUAGUCCCUGGACUGUGUUUCAUCCAU_AUCCUGUUGAAUAGGCACCUUUUGCGGACUAUUA
......((((((((((((..((((((....................))))))..)))))))))))).. ( -9.16 =  -9.85 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 11,566,256 – 11,566,323
Length 67
Sequences 4
Columns 68
Reading direction reverse
Mean pairwise identity 68.89
Shannon entropy 0.50303
G+C content 0.44889
Mean single sequence MFE -16.43
Consensus MFE -7.30
Energy contribution -8.67
Covariance contribution 1.37
Combinations/Pair 1.33
Mean z-score -1.76
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.49
SVM RNA-class probability 0.716531
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11566256 67 - 24543557
UAAUAGUCCGCAAAAGGCGCCUAUUGAACAGGAU-AUGGAUGAAACACGGUCCAGGGACUACAAAACU
...((((((.(((.((....)).)))....((((-.((.......))..))))..))))))....... ( -15.20, z-score =  -1.65, R)
>droSec1.super_0 3758438 67 - 21120651
UAAUAGUCCGCAAAAGGUGCCUAUUCAACAGGAU-AUGGAUGAAACACCGUCCAGGGACUACAAAACU
...(((((((((.....))).(((((....))))-)((((((......)))))).))))))....... ( -18.20, z-score =  -2.71, R)
>droSim1.chr3L 10941630 67 - 22553184
UAAUAGUCCCCAAAAGGUGCCCAUUCAACAGGAU-AUGGAUGAAACACAGUCCAGGGACUACAAAACU
...(((((((......(((..((((((.......-.))))))...)))......)))))))....... ( -18.10, z-score =  -2.33, R)
>droWil1.scaffold_180698 2073893 56 - 11422946
-AACCGUUUCGUACAGAUGACC----AGCAGGAUGAUGAUCUGGUGGGAGUCAAGGAUCUA-------
-..((((.....)).(((..((----(.((((.......)))).)))..)))..)).....------- ( -14.20, z-score =  -0.35, R)
>consensus
UAAUAGUCCCCAAAAGGUGCCCAUUCAACAGGAU_AUGGAUGAAACACAGUCCAGGGACUACAAAACU
...(((((((..........((........))....((((((......)))))))))))))....... ( -7.30 =  -8.67 +   1.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:19:01 2011