Locus 7449

Sequence ID dm3.chr3L
Location 14,914,719 – 14,914,784
Length 65
Max. P 0.679660
window10262 window10263

overview

Window 2

Location 14,914,719 – 14,914,784
Length 65
Sequences 5
Columns 65
Reading direction forward
Mean pairwise identity 96.92
Shannon entropy 0.05553
G+C content 0.41538
Mean single sequence MFE -14.88
Consensus MFE -13.86
Energy contribution -13.74
Covariance contribution -0.12
Combinations/Pair 1.12
Mean z-score -1.43
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.36
SVM RNA-class probability 0.660422
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14914719 65 + 24543557
GCACACUUUGUACCAUUUUGCGUUUAGCGUUUUUGGCCAAGUUCAGUUUUGGCCAACUUUAGUUU
....(((..((........((.....)).....((((((((......))))))))))...))).. ( -14.30, z-score =  -1.69, R)
>droEre2.scaffold_4784 14874782 65 + 25762168
GCACACUUUGUACCAUUUUGCGCUUAGCGCUUUUGGCCAAGUUCAGUUUGGGCCAACUUUAGUUU
.......(((..(((..(((.((((.((.(....))).)))).)))..)))..)))......... ( -14.10, z-score =  -0.20, R)
>droYak2.chr3L 15000650 65 + 24197627
GCACACUUUGUACCAUUUUGCGUUUAGCGUUGUUGGCCAAGUUCGGUUUUGGCCAACUUUAGUUU
...................((.....))...((((((((((......))))))))))........ ( -17.40, z-score =  -1.88, R)
>droSec1.super_0 7033074 65 + 21120651
GCACACUUUGUACCAUUUUGCGUUUAGCGUUUUUGGCCAAGUUCAGUUUUGGCCAACUUUAGUUU
....(((..((........((.....)).....((((((((......))))))))))...))).. ( -14.30, z-score =  -1.69, R)
>droSim1.chr3L 14231208 65 + 22553184
GCACACUUUGUACCAUUUUGCGUUUAGCGUUUUUGGCCAAGUUCAGUUUUGGCCAACUUUAGUUU
....(((..((........((.....)).....((((((((......))))))))))...))).. ( -14.30, z-score =  -1.69, R)
>consensus
GCACACUUUGUACCAUUUUGCGUUUAGCGUUUUUGGCCAAGUUCAGUUUUGGCCAACUUUAGUUU
....(((..((........((((...))))...((((((((......))))))))))...))).. (-13.86 = -13.74 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 14,914,719 – 14,914,784
Length 65
Sequences 5
Columns 65
Reading direction reverse
Mean pairwise identity 96.92
Shannon entropy 0.05553
G+C content 0.41538
Mean single sequence MFE -15.62
Consensus MFE -14.26
Energy contribution -14.30
Covariance contribution 0.04
Combinations/Pair 1.07
Mean z-score -1.59
Structure conservation index 0.91
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.40
SVM RNA-class probability 0.679660
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14914719 65 - 24543557
AAACUAAAGUUGGCCAAAACUGAACUUGGCCAAAAACGCUAAACGCAAAAUGGUACAAAGUGUGC
.........((((((((........))))))))..(((((....((......))....))))).. ( -14.90, z-score =  -1.66, R)
>droEre2.scaffold_4784 14874782 65 - 25762168
AAACUAAAGUUGGCCCAAACUGAACUUGGCCAAAAGCGCUAAGCGCAAAAUGGUACAAAGUGUGC
.........((((((............))))))..((((...))))......((((.....)))) ( -14.90, z-score =  -0.28, R)
>droYak2.chr3L 15000650 65 - 24197627
AAACUAAAGUUGGCCAAAACCGAACUUGGCCAACAACGCUAAACGCAAAAUGGUACAAAGUGUGC
........(((((((((........))))))))).(((((....((......))....))))).. ( -18.50, z-score =  -2.70, R)
>droSec1.super_0 7033074 65 - 21120651
AAACUAAAGUUGGCCAAAACUGAACUUGGCCAAAAACGCUAAACGCAAAAUGGUACAAAGUGUGC
.........((((((((........))))))))..(((((....((......))....))))).. ( -14.90, z-score =  -1.66, R)
>droSim1.chr3L 14231208 65 - 22553184
AAACUAAAGUUGGCCAAAACUGAACUUGGCCAAAAACGCUAAACGCAAAAUGGUACAAAGUGUGC
.........((((((((........))))))))..(((((....((......))....))))).. ( -14.90, z-score =  -1.66, R)
>consensus
AAACUAAAGUUGGCCAAAACUGAACUUGGCCAAAAACGCUAAACGCAAAAUGGUACAAAGUGUGC
.........((((((((........))))))))..(((((....((......))....))))).. (-14.26 = -14.30 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:27:12 2011