Locus 7634

Sequence ID dm3.chr3L
Location 16,130,359 – 16,130,476
Length 117
Max. P 0.606079
window10507 window10508

overview

Window 7

Location 16,130,359 – 16,130,471
Length 112
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 98.21
Shannon entropy 0.02460
G+C content 0.44345
Mean single sequence MFE -16.33
Consensus MFE -16.07
Energy contribution -15.63
Covariance contribution -0.44
Combinations/Pair 1.10
Mean z-score -0.94
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.02
SVM RNA-class probability 0.505923
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 16130359 112 + 24543557
AUCGCCUAGAUCGCUUGUACUUGCCUUGUACCUGUUCUCCCCCAUUUCCCCCUCGACGGGCAAUUACUAUUUGCUGUUUUAUUUCAGUUAUUUCCACAAUCUGUCUGCAUUG
...((...((..((..((((.......))))..))..))...............((((((............((((........))))...........)))))).)).... ( -15.40, z-score =  -0.86, R)
>droSec1.super_0 8229994 112 + 21120651
AUCGCCUAGAUCGCUUGUACUUGCCUUGUACCUGCUCUCCACCAUUUCCCCCUCGAUGGGCAAUUACUAUUUGCUGUUUUAUUUCAGUUAUUUCCACAAUCUGUCUGCAUUG
...((.(((((.((..((((.......))))..))......(((((........)))))((((.......))))........................)))))...)).... ( -16.60, z-score =  -0.87, R)
>droSim1.chr3L 15463651 112 + 22553184
AUCGCCUAGAUCGCUUGUACUUGCCUUGUACCUGCUCUCCACCAUUUCCCCCUCGACGGGCAAUUACUAUUUGCUGUUUUAUUUCAGUUAUUUCCACAAUCUGUCUGCAUUG
...((...((..((..((((.......))))..))..))...............((((((............((((........))))...........)))))).)).... ( -17.00, z-score =  -1.09, R)
>consensus
AUCGCCUAGAUCGCUUGUACUUGCCUUGUACCUGCUCUCCACCAUUUCCCCCUCGACGGGCAAUUACUAUUUGCUGUUUUAUUUCAGUUAUUUCCACAAUCUGUCUGCAUUG
...((...((..((..((((.......))))..))..))...............((((((............((((........))))...........)))))).)).... (-16.07 = -15.63 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 16,130,359 – 16,130,476
Length 117
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 97.72
Shannon entropy 0.03139
G+C content 0.44729
Mean single sequence MFE -20.63
Consensus MFE -20.45
Energy contribution -20.23
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -0.97
Structure conservation index 0.99
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.23
SVM RNA-class probability 0.606079
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 16130359 117 + 24543557
AUCGCCUAGAUCGCUUGUACUUGCCUUGUACCUGUUCUCCCCCAUUUCCCCCUCGACGGGCAAUUACUAUUUGCUGUUUUAUUUCAGUUAUUUCCACAAUCUGUCUGCAUUGUGGUU
...((((.((..((..((((.......))))..))..)).......((......)).))))...........((((........)))).....((((((((.....).))))))).. ( -19.30, z-score =  -0.84, R)
>droSec1.super_0 8229994 117 + 21120651
AUCGCCUAGAUCGCUUGUACUUGCCUUGUACCUGCUCUCCACCAUUUCCCCCUCGAUGGGCAAUUACUAUUUGCUGUUUUAUUUCAGUUAUUUCCACAAUCUGUCUGCAUUGUGGCU
...(((((((..((..((((.......))))..))..)).......((......)))))))...........((((........)))).....((((((((.....).))))))).. ( -21.90, z-score =  -1.22, R)
>droSim1.chr3L 15463651 117 + 22553184
AUCGCCUAGAUCGCUUGUACUUGCCUUGUACCUGCUCUCCACCAUUUCCCCCUCGACGGGCAAUUACUAUUUGCUGUUUUAUUUCAGUUAUUUCCACAAUCUGUCUGCAUUGUGGCU
...((((.((..((..((((.......))))..))..)).......((......)).))))...........((((........)))).....((((((((.....).))))))).. ( -20.70, z-score =  -0.84, R)
>consensus
AUCGCCUAGAUCGCUUGUACUUGCCUUGUACCUGCUCUCCACCAUUUCCCCCUCGACGGGCAAUUACUAUUUGCUGUUUUAUUUCAGUUAUUUCCACAAUCUGUCUGCAUUGUGGCU
...((((.((..((..((((.......))))..))..)).......((......)).))))...........((((........)))).....((((((((.....).))))))).. (-20.45 = -20.23 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:30:35 2011