Locus 11448

Sequence ID dm3.chr3R
Location 21,260,203 – 21,260,283
Length 80
Max. P 0.998573
window15737 window15738

overview

Window 7

Location 21,260,203 – 21,260,283
Length 80
Sequences 3
Columns 80
Reading direction forward
Mean pairwise identity 96.67
Shannon entropy 0.04591
G+C content 0.40417
Mean single sequence MFE -21.23
Consensus MFE -20.35
Energy contribution -20.80
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -1.65
Structure conservation index 0.96
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.02
SVM RNA-class probability 0.875393
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 21260203 80 + 27905053
UUUGUUAUCGUCAUAGGCGGUUGGGCGGUAUGUGUGGCUUUAGUUUGCCUGGAUAUUUCCUAUAUUUUUCACCUAUAUCA
.........(..(((((.((.((((..((((.((.(((........))))).))))..))))......)).)))))..). ( -17.50, z-score =  -0.50, R)
>droSim1.chr3R 21088435 80 + 27517382
UUUGUUAUCGGCAUAGGCGGUUGGAUGGUAUGUGUGGCUUUAGUUUGCCUGGAUAUUUCCUAUAUUUUUCACCUAUGUCA
.........((((((((....((((..(((((...(((........))).(((....))))))))..)))))))))))). ( -23.10, z-score =  -2.26, R)
>droSec1.super_13 33848 80 + 2104621
UUUGUUAUCGGCAUAGGCGGUUGGACGGUAUGUGUGGCUUUAGUUUGCCUGGAUAUUUCCUAUAUUUUUCACCUAUGUCA
.........((((((((....((((..(((((...(((........))).(((....))))))))..)))))))))))). ( -23.10, z-score =  -2.19, R)
>consensus
UUUGUUAUCGGCAUAGGCGGUUGGACGGUAUGUGUGGCUUUAGUUUGCCUGGAUAUUUCCUAUAUUUUUCACCUAUGUCA
.........((((((((....((((..(((((...(((........))).(((....))))))))..)))))))))))). (-20.35 = -20.80 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 21,260,203 – 21,260,283
Length 80
Sequences 3
Columns 80
Reading direction reverse
Mean pairwise identity 96.67
Shannon entropy 0.04591
G+C content 0.40417
Mean single sequence MFE -18.10
Consensus MFE -18.32
Energy contribution -18.10
Covariance contribution -0.22
Combinations/Pair 1.07
Mean z-score -3.66
Structure conservation index 1.01
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.41
SVM RNA-class probability 0.998573
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 21260203 80 - 27905053
UGAUAUAGGUGAAAAAUAUAGGAAAUAUCCAGGCAAACUAAAGCCACACAUACCGCCCAACCGCCUAUGACGAUAACAAA
...((((((((.........(((....))).(((........)))................))))))))........... ( -16.90, z-score =  -3.35, R)
>droSim1.chr3R 21088435 80 - 27517382
UGACAUAGGUGAAAAAUAUAGGAAAUAUCCAGGCAAACUAAAGCCACACAUACCAUCCAACCGCCUAUGCCGAUAACAAA
.(.((((((((.........(((....))).(((........)))................)))))))).)......... ( -18.70, z-score =  -4.05, R)
>droSec1.super_13 33848 80 - 2104621
UGACAUAGGUGAAAAAUAUAGGAAAUAUCCAGGCAAACUAAAGCCACACAUACCGUCCAACCGCCUAUGCCGAUAACAAA
.(.((((((((.........(((....))).(((........)))................)))))))).)......... ( -18.70, z-score =  -3.60, R)
>consensus
UGACAUAGGUGAAAAAUAUAGGAAAUAUCCAGGCAAACUAAAGCCACACAUACCGUCCAACCGCCUAUGCCGAUAACAAA
.(.((((((((.........(((....))).(((........)))................)))))))).)......... (-18.32 = -18.10 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:43:12 2011