Locus 4224

Sequence ID dm3.chr2R
Location 11,482,870 – 11,482,970
Length 100
Max. P 0.771697
window5785

overview

Window 5

Location 11,482,870 – 11,482,970
Length 100
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 84.93
Shannon entropy 0.22934
G+C content 0.49440
Mean single sequence MFE -16.88
Consensus MFE -12.68
Energy contribution -12.68
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.64
SVM RNA-class probability 0.771697
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 11482870 100 + 21146708
GUAAACCACAAUUAACCAUCGCACCACCCAACCGCAGUGGUGCAUCACCAUCACAAUAUCACCAUAUUACCAUAUCACAAUCGUCAUACUGGGGCACUCG
...............((...(((((((.........)))))))..........................((((((.((....)).))).)))))...... ( -16.50, z-score =  -1.77, R)
>droSec1.super_1 8973487 100 + 14215200
GCAAACCACAAUUAACCAUAGCACCACCCAACCGCAGUGGUGCAUCACCAUCACAAUAUCACCAUAUCACCAUAUCACAAUCGUCAUACUGGGAAACUCG
....................(((((((.........))))))).......................((.((((((.((....)).))).)))))...... ( -15.80, z-score =  -2.43, R)
>droYak2.chr2R 3631184 84 - 21139217
GCAAACCACAAUUAACCAUCGCACCACCCAACCGCAGUGGUGCAUCACCAUCACAAUAU----------------CACAAUCGUCAUACUGGGUGCCUCG
((..(((.............(((((((.........)))))))..........((.(((----------------.((....)).))).))))))).... ( -16.40, z-score =  -1.81, R)
>droEre2.scaffold_4845 8203782 84 - 22589142
GCAAACCACAAUUAACCAUCGCACCACCCAACCGCAGUGGUGCAUCACCAUCACAAUAU----------------CACAGUCGUCAUACUGGGGGCCUCG
((...((.............(((((((.........)))))))................----------------..((((......)))))).)).... ( -18.80, z-score =  -1.75, R)
>consensus
GCAAACCACAAUUAACCAUCGCACCACCCAACCGCAGUGGUGCAUCACCAUCACAAUAU________________CACAAUCGUCAUACUGGGGGACUCG
...............(((..(((((((.........))))))).................................((....)).....)))........ (-12.68 = -12.68 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:25:03 2011