Locus 3885

Sequence ID dm3.chr2R
Location 8,658,361 – 8,658,477
Length 116
Max. P 0.678827
window5326

overview

Window 6

Location 8,658,361 – 8,658,477
Length 116
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 73.39
Shannon entropy 0.34319
G+C content 0.64346
Mean single sequence MFE -30.80
Consensus MFE -20.65
Energy contribution -22.10
Covariance contribution 1.45
Combinations/Pair 1.04
Mean z-score -1.60
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.40
SVM RNA-class probability 0.678827
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 8658361 116 + 21146708
GCCGUCUGCGCCAUCCAUCGUUCCCAUCCCAUCCCUGCACAUCCCAACCCUUCCCCUAC-AGCUGUCCGCUCCUGGCAUCCUUUGCCUGCUCAGCAGUGCGUGUGGAUGGUCGGUCG
..((.(((.((((((((((((.(......((....))......................-.((((...((....((((.....)))).)).)))).).))).)))))))))))).)) ( -31.50, z-score =  -1.88, R)
>droSim1.chr2R 7138475 93 + 19596830
----------------------GCCGCCUC--CGCCAUCCAUCCCAACCAUGCCCAUCCCAGCUCUCCGCUCCUGGCAUCCUUUGCCUGCUCAGCAGUGCGUGUGGAUGGGCGGUCU
----------------------(((((...--.))................((((((((((((.((..(((...((((.....)))).....))))).)).)).))))))))))).. ( -32.10, z-score =  -1.69, R)
>droSec1.super_1 6196567 93 + 14215200
----------------------GCCGCCUC--CGCCAUCCAUCCCAACCAUGCCGAUCCCAGCUUUCCGCUCCUGGCAUCCUUUGCCUGCUCAGCAGUGCGUGUGUAUGGGCGGUCG
----------------------(((((((.--.(((((...........((((((.....(((.....)))..)))))).....((((((...)))).))))).))..))))))).. ( -28.80, z-score =  -1.24, R)
>consensus
______________________GCCGCCUC__CGCCAUCCAUCCCAACCAUGCCCAUCCCAGCUCUCCGCUCCUGGCAUCCUUUGCCUGCUCAGCAGUGCGUGUGGAUGGGCGGUCG
......................(((((((......................(((......(((.....)))...)))((((..(((((((...)))).)))...))))))))))).. (-20.65 = -22.10 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:18:40 2011