Locus 7056

Sequence ID dm3.chr3L
Location 11,815,135 – 11,815,190
Length 55
Max. P 0.941928
window9719 window9720

overview

Window 9

Location 11,815,135 – 11,815,190
Length 55
Sequences 3
Columns 58
Reading direction forward
Mean pairwise identity 91.95
Shannon entropy 0.11083
G+C content 0.50178
Mean single sequence MFE -18.20
Consensus MFE -18.22
Energy contribution -18.00
Covariance contribution -0.22
Combinations/Pair 1.07
Mean z-score -1.18
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.98
SVM RNA-class probability 0.866285
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11815135 55 + 24543557
AAGGAGAGAGCGCAAGAGAGUUUCUCUUUGCCUCUCUUGAACA---CACUAUGAUAUC
...(((((((.(((((((.....))).))))))))))).....---............ ( -18.20, z-score =  -2.44, R)
>droSec1.super_0 4000306 58 + 21120651
GGGGAGAGAGCGCAAGAGAGUUUCUCUUUGCCUCUCUUGAACGGGCCACUAUGAUGUC
...(((((((.(((((((.....))).))))))))))).................... ( -18.20, z-score =  -0.55, R)
>droSim1.chr3L 11180373 58 + 22553184
GGGGAGAGAGCGCAAGAGAGUUUCUCUUUGCCUCUCUUGAACGGGCCACUAUGAUGUC
...(((((((.(((((((.....))).))))))))))).................... ( -18.20, z-score =  -0.55, R)
>consensus
GGGGAGAGAGCGCAAGAGAGUUUCUCUUUGCCUCUCUUGAACGGGCCACUAUGAUGUC
.(((((((.(((.(((((.....))))))))))))))).................... (-18.22 = -18.00 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 11,815,135 – 11,815,190
Length 55
Sequences 3
Columns 58
Reading direction reverse
Mean pairwise identity 91.95
Shannon entropy 0.11083
G+C content 0.50178
Mean single sequence MFE -16.20
Consensus MFE -16.20
Energy contribution -16.20
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.51
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.48
SVM RNA-class probability 0.941928
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11815135 55 - 24543557
GAUAUCAUAGUG---UGUUCAAGAGAGGCAAAGAGAAACUCUCUUGCGCUCUCUCCUU
............---......((((((((((.(((.....))))))).)))))).... ( -16.20, z-score =  -1.79, R)
>droSec1.super_0 4000306 58 - 21120651
GACAUCAUAGUGGCCCGUUCAAGAGAGGCAAAGAGAAACUCUCUUGCGCUCUCUCCCC
.....................((((((((((.(((.....))))))).)))))).... ( -16.20, z-score =  -1.36, R)
>droSim1.chr3L 11180373 58 - 22553184
GACAUCAUAGUGGCCCGUUCAAGAGAGGCAAAGAGAAACUCUCUUGCGCUCUCUCCCC
.....................((((((((((.(((.....))))))).)))))).... ( -16.20, z-score =  -1.36, R)
>consensus
GACAUCAUAGUGGCCCGUUCAAGAGAGGCAAAGAGAAACUCUCUUGCGCUCUCUCCCC
.....................((((((((((.(((.....))))))).)))))).... (-16.20 = -16.20 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:19:42 2011