Locus 10830

Sequence ID dm3.chr3R
Location 16,781,929 – 16,782,055
Length 126
Max. P 0.551395
window14879

overview

Window 9

Location 16,781,929 – 16,782,055
Length 126
Sequences 3
Columns 145
Reading direction reverse
Mean pairwise identity 84.14
Shannon entropy 0.21992
G+C content 0.36502
Mean single sequence MFE -33.21
Consensus MFE -25.29
Energy contribution -26.97
Covariance contribution 1.68
Combinations/Pair 1.12
Mean z-score -1.66
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.12
SVM RNA-class probability 0.551395
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16781929 126 - 27905053
AGUGUUAGUAUUUUA-AUUGGUAUUCCCCAAACAUGUGUACCAUAU------------------GCUGAUAUGAAAACUUUUCAAUUUAAACGAAGCAGUUUGUUAGCAAUAUUUCCUCUUGAGCACCGUACGGUGCGCGAUUAA
.((((((((((....-..((((((.............)))))).))------------------))))))))..(((((((((.........)))).))))).................(((.(((((....))))).))).... ( -26.42, z-score =  -0.97, R)
>droSec1.super_38 56552 145 + 400794
AGUGUUAGUAUUUUAUAUUCGUAUUCCCCAAGCAUAUGUACCAUAUGCUAGGGUUGGUACAUUGGCUGAUCGCAAAACGUUUCAAUUUAAACGAAACUGUUUGUUAGCAAUAUUUCCUCGUGAGCACCGUACGGUGUUCGAUUAA
.(.(..((((((........(((((.(((.((((((((...)))))))).)))..)))))....((((((....(((((((((.........))))).))))))))))))))))..).).((((((((....))))))))..... ( -42.00, z-score =  -3.21, R)
>droSim1.chrU 3683283 145 + 15797150
AGUGUUAGUAUUUUAUAUUCGUAUUCCCCAAACAUAUGUACCAUAUGUUAGGGUUGGUACAUUGGCUGAUCGCAAAACUUUUCAAUUUAAACGAAACAGUUUGUUAGCAAUAUUUCCUCUAGAGCCGCGUACGGUGUUCGAUUAA
((.(..((((((........(((((.(((.((((((((...)))))))).)))..)))))....((((((....(((((((((.........)))).)))))))))))))))))..).))...((((....)))).......... ( -31.20, z-score =  -0.80, R)
>consensus
AGUGUUAGUAUUUUAUAUUCGUAUUCCCCAAACAUAUGUACCAUAUG_UAGGGUUGGUACAUUGGCUGAUCGCAAAACUUUUCAAUUUAAACGAAACAGUUUGUUAGCAAUAUUUCCUCUUGAGCACCGUACGGUGUUCGAUUAA
.(.(..((((((..............(((.((((((((...)))))))).)))...........((((((....(((((((((.........)))).)))))))))))))))))..).)..(((((((....)))))))...... (-25.29 = -26.97 +   1.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:31:13 2011