Locus 13290

Sequence ID dm3.chrX
Location 5,618,740 – 5,618,859
Length 119
Max. P 0.579316
window18283

overview

Window 3

Location 5,618,740 – 5,618,859
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 87.36
Shannon entropy 0.17391
G+C content 0.45650
Mean single sequence MFE -33.37
Consensus MFE -26.83
Energy contribution -26.83
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.69
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.18
SVM RNA-class probability 0.579316
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 5618740 119 + 22422827
GUGCAAAAAAAAAAAAAAGUAAGACUAUGUACAAAACCGA-GGCAAGUGUAGUGUGCUUGCAAAUUUGCGCACAGUGGGACAGGUGGCGCCGCACAGUGGGUGCACACCACCCACAAAGU
(((((((...........(((........)))........-.((((((.......))))))...)))))))...(((((...(((((((((........))))).)))).)))))..... ( -40.30, z-score =  -2.09, R)
>droSec1.super_4 5038787 116 - 6179234
----AAAAAAAAGAAAAAAAAAGAGUAUAUAUAAAACCAAAGGGAAGAGUAGCUUGCUUGCAAAUUUGCGCACAGUGGGACAGGUGGCGCCACACAGUGGGUGCACACCACCCACAAAGU
----..................(((((..(((....((....))....)))...)))))(((....))).....(((((...(((((((((........))))).)))).)))))..... ( -29.80, z-score =  -1.70, R)
>droSim1.chrX 4368117 111 + 17042790
---------AAAAAAAAAAGAAGAGUAUAUAUAAAACCAAAGGGAAGAGUAGCUUGCUUGCAAAUUUGCGCACAGUGGGACAGGUGGCGCCGCACAGUGGGUGCACACCACCCACAAAGU
---------.............(((((..(((....((....))....)))...)))))(((....))).....(((((...(((((((((........))))).)))).)))))..... ( -30.00, z-score =  -1.27, R)
>consensus
____AAAAAAAAAAAAAAAAAAGAGUAUAUAUAAAACCAAAGGGAAGAGUAGCUUGCUUGCAAAUUUGCGCACAGUGGGACAGGUGGCGCCGCACAGUGGGUGCACACCACCCACAAAGU
......................................................(((..(((....))))))..(((((...(((((((((........))))).)))).)))))..... (-26.83 = -26.83 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:18:24 2011