Locus 5404

Sequence ID dm3.chr2R
Location 20,116,043 – 20,116,133
Length 90
Max. P 0.876909
window7411

overview

Window 1

Location 20,116,043 – 20,116,133
Length 90
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 75.40
Shannon entropy 0.34794
G+C content 0.55278
Mean single sequence MFE -36.78
Consensus MFE -24.21
Energy contribution -22.90
Covariance contribution -1.31
Combinations/Pair 1.28
Mean z-score -1.94
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.03
SVM RNA-class probability 0.876909
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 20116043 90 + 21146708
-------------CUCAUGGCUCGUGGCACUUUGGCGCCAGGACUCCGGCUAC-----------------GAGGUCUUCGCCUCGCAAUGGAUGACAAUGUAGUCAGGAGACUGUAAAAU
-------------........((.((((.(....).)))).))((((((((((-----------------(((((....)))))....((.....))..)))))).)))).......... ( -29.90, z-score =  -1.04, R)
>droSec1.super_14648 280 90 + 645
-------------CUCAUGGCUCGUGGCACUUUGGCGCCAGGACUCCGGCUAC-----------------GGGGUCCUCGCCUCGCAAUGGAUGACAAUGUAGUCAGGAGACUGUAAAAU
-------------...(((((((.((((.....((((..(((((((((....)-----------------))))))))))))..(((.((.....)).))).)))).))).))))..... ( -37.60, z-score =  -2.95, R)
>droEre2.scaffold_4845 21478603 90 + 22589142
-------------CUCAUGGCUCGUGGCACUUUGGCGCCAGGACUCCGGCUUU-----------------GGGGUCCUCGCCUCGCAAUGGAUGACAAUGUAGCCAGGAGACUGUAAAAU
-------------...(((((((.((((.....((((..(((((((((....)-----------------))))))))))))..(((.((.....)).))).)))).))).))))..... ( -36.90, z-score =  -2.43, R)
>droAna3.scaffold_13266 5594529 120 - 19884421
CUCAUGGCUCCCAGCAGCGGCUCAUGGCACUUUGGCGCUCGAGCUUCGGCUUCAGCUUCAGCUCCUGCUUGGGGUCCUUUCUUCGAAAUGGAUGACAAUGUAUCCAGGAGACUGUAAAAU
.....((((((.(((((.((((....((......))(((.((((....)))).)))...)))).))))).))))))...(((((....((((((......)))))))))))......... ( -42.70, z-score =  -1.35, R)
>consensus
_____________CUCAUGGCUCGUGGCACUUUGGCGCCAGGACUCCGGCUAC_________________GGGGUCCUCGCCUCGCAAUGGAUGACAAUGUAGCCAGGAGACUGUAAAAU
................(((((((.((((((.(((..(((.((...)))))....................((((......))))...........))).)).)))).))).))))..... (-24.21 = -22.90 +  -1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:47:39 2011