Locus 1

Sequence ID dm3.chr2LHet
Location 36,615 – 36,721
Length 106
Max. P 0.515802
window1

overview

Window 1

Location 36,615 – 36,721
Length 106
Sequences 3
Columns 106
Reading direction reverse
Mean pairwise identity 60.69
Shannon entropy 0.56690
G+C content 0.44166
Mean single sequence MFE -27.07
Consensus MFE -13.61
Energy contribution -11.97
Covariance contribution -1.65
Combinations/Pair 1.62
Mean z-score -0.95
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.04
SVM RNA-class probability 0.515802
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2LHet 36615 106 - 368872
AGCACGGGGGAUCAAACAUCGUGGUAUGGGCGUGCUCUUCAAACUAUGGAGUAGGUCCGAUCCAUUGAAUUCAAGGCAUCAUGGAUCAGCACAUUUACACAGAUAU
..((((..(.......)..))))(((.((((.((((((.........)))))).))))(((((((.((..........)))))))))........)))........ ( -29.60, z-score =  -1.70, R)
>anoGam1.chr2L 616851 106 - 48795086
AACACAGAGGAGCAAAACUCAUGGUGUGGGGAUGUUUUUCGUACAAUGGUGUUGGUCCAAUUUAUCGCAUACCGGGUAUAAUGGAUCAACAUGGAUACAUAGCAAU
......((((((((...(((((...)))))..))))))))(((...(.(((((((((((...((((........))))...))))))))))).).)))........ ( -29.60, z-score =  -1.95, R)
>triCas2.ChLG4 653835 105 + 13894384
AACAUGGUCAUGGUAGCGUUUUUCUGUGGGGUUGUUUUUCGUGCAAUGGUGUGGGUCCGUUGAGCUUUAUUGAGGGAAU-AUGGAUCGGUUCAUCUAUAGGGACAU
..(((....)))........(..((((((((((((.......))))).(..(.(((((((....((((....))))...-))))))).)..).)))))))..)... ( -22.00, z-score =   0.79, R)
>consensus
AACACGGAGGAGCAAACAUCAUGGUGUGGGGAUGUUUUUCGUACAAUGGUGUAGGUCCGAUCAAUUGAAUUCAGGGAAU_AUGGAUCAGCACAUAUACACAGAAAU
.......................(((((((.(((((......(((....))).((((((.....(((....))).......))))))))))).)))))))...... (-13.61 = -11.97 +  -1.65)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:04:41 2011