Locus 7719

Sequence ID dm3.chr3L
Location 16,851,418 – 16,851,484
Length 66
Max. P 0.992750
window10626 window10627

overview

Window 6

Location 16,851,418 – 16,851,484
Length 66
Sequences 5
Columns 66
Reading direction forward
Mean pairwise identity 98.79
Shannon entropy 0.02188
G+C content 0.43333
Mean single sequence MFE -17.72
Consensus MFE -17.44
Energy contribution -17.44
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.80
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.56
SVM RNA-class probability 0.992750
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 16851418 66 + 24543557
GCGAUAAUCUGUAAUAACUCGAGAGUUGUUUGAAAGUUGCAGCCUAAACGAAACUGCGACCCGCAA
(((....((...(((((((....))))))).))..(((((((...........))))))).))).. ( -17.40, z-score =  -2.75, R)
>droSim1.chr3L 16196346 66 + 22553184
GCGAUAAUCUGUAAUAACUCGAGAGUUGUUUGAAAGUUGCAGCCUAAACGAAACUGCGACCCGCAA
(((....((...(((((((....))))))).))..(((((((...........))))))).))).. ( -17.40, z-score =  -2.75, R)
>droSec1.super_0 8921870 66 + 21120651
GCGAUAAUCUGUAAUAACUCGAGAGUUGUUUGAAAGUUGCAGCCUAAACGAAACUGCGACCCGCAA
(((....((...(((((((....))))))).))..(((((((...........))))))).))).. ( -17.40, z-score =  -2.75, R)
>droEre2.scaffold_4784 8779006 66 - 25762168
GCGAUAAUCUGUAAUAACUCGAGAGUUGUUUGAAAGUUGCAGCCUAAAUGAAACUGCGACUCGCAA
((((...((...(((((((....))))))).))..(((((((...........))))))))))).. ( -19.00, z-score =  -3.00, R)
>droYak2.chr3L 6980835 66 - 24197627
GCGAUAAUCUGUAAUAACUCGAGAGUUGUUUGAAAGUUGCAGCCUAAACGAAACUGCGACCCGCAA
(((....((...(((((((....))))))).))..(((((((...........))))))).))).. ( -17.40, z-score =  -2.75, R)
>consensus
GCGAUAAUCUGUAAUAACUCGAGAGUUGUUUGAAAGUUGCAGCCUAAACGAAACUGCGACCCGCAA
(((....((...(((((((....))))))).))..(((((((...........))))))).))).. (-17.44 = -17.44 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 16,851,418 – 16,851,484
Length 66
Sequences 5
Columns 66
Reading direction reverse
Mean pairwise identity 98.79
Shannon entropy 0.02188
G+C content 0.43333
Mean single sequence MFE -13.68
Consensus MFE -13.84
Energy contribution -13.68
Covariance contribution -0.16
Combinations/Pair 1.06
Mean z-score -1.00
Structure conservation index 1.01
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.51
SVM RNA-class probability 0.725652
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 16851418 66 - 24543557
UUGCGGGUCGCAGUUUCGUUUAGGCUGCAACUUUCAAACAACUCUCGAGUUAUUACAGAUUAUCGC
..((((((((((((((.....)))))))...........((((....))))......)))..)))) ( -13.50, z-score =  -0.84, R)
>droSim1.chr3L 16196346 66 - 22553184
UUGCGGGUCGCAGUUUCGUUUAGGCUGCAACUUUCAAACAACUCUCGAGUUAUUACAGAUUAUCGC
..((((((((((((((.....)))))))...........((((....))))......)))..)))) ( -13.50, z-score =  -0.84, R)
>droSec1.super_0 8921870 66 - 21120651
UUGCGGGUCGCAGUUUCGUUUAGGCUGCAACUUUCAAACAACUCUCGAGUUAUUACAGAUUAUCGC
..((((((((((((((.....)))))))...........((((....))))......)))..)))) ( -13.50, z-score =  -0.84, R)
>droEre2.scaffold_4784 8779006 66 + 25762168
UUGCGAGUCGCAGUUUCAUUUAGGCUGCAACUUUCAAACAACUCUCGAGUUAUUACAGAUUAUCGC
..((((((((((((((.....)))))))...........((((....))))......)))..)))) ( -14.40, z-score =  -1.66, R)
>droYak2.chr3L 6980835 66 + 24197627
UUGCGGGUCGCAGUUUCGUUUAGGCUGCAACUUUCAAACAACUCUCGAGUUAUUACAGAUUAUCGC
..((((((((((((((.....)))))))...........((((....))))......)))..)))) ( -13.50, z-score =  -0.84, R)
>consensus
UUGCGGGUCGCAGUUUCGUUUAGGCUGCAACUUUCAAACAACUCUCGAGUUAUUACAGAUUAUCGC
..((((((((((((((.....)))))))...........((((....))))......)))..)))) (-13.84 = -13.68 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:32:13 2011