Locus 11983

Sequence ID dm3.chr3R
Location 24,921,290 – 24,921,381
Length 91
Max. P 0.998693
window16463 window16464

overview

Window 3

Location 24,921,290 – 24,921,381
Length 91
Sequences 6
Columns 91
Reading direction forward
Mean pairwise identity 86.75
Shannon entropy 0.25297
G+C content 0.48164
Mean single sequence MFE -17.22
Consensus MFE -11.69
Energy contribution -12.38
Covariance contribution 0.69
Combinations/Pair 1.08
Mean z-score -2.11
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.64
SVM RNA-class probability 0.770996
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 24921290 91 + 27905053
ACAAACAUCGUUCAGGCAACAAGCAUCCAACGAGCAGAGCACACACAACAAAAGGCGGCAGACUCGCAUUACUCGUUGCCAGGAAUAUAUC
.........((((.((((((..((.((....)))).(((.........(....)((((.....))))....)))))))))..))))..... ( -18.20, z-score =  -1.89, R)
>droSim1.chr3R 24604632 91 + 27517382
ACAAACAUCGUCCAGGCAACAAGCAUCCAACGAGCAGAGCACACACAACAAAAGGCAGCAGACUCGCAUUACUCGUUGCCAGGAAUAUAUC
..........(((.((((((..((.((....)))).(((.........(....)...((......))....))))))))).)))....... ( -17.50, z-score =  -1.99, R)
>droSec1.super_4 3786026 91 + 6179234
ACAAACAUCGUCCAGGCAACAAGCAUCCAACGAGCAGAGCACACACAACAAAAGGCAGCAGACUCGCAUUACUCGUUGCCAGGAAUAUAUC
..........(((.((((((..((.((....)))).(((.........(....)...((......))....))))))))).)))....... ( -17.50, z-score =  -1.99, R)
>droEre2.scaffold_4820 7359744 89 - 10470090
GCAAACAUCGUCCAGGCAACAAGCAUCCAACGAGCAG--CACACACAACAAAAGGCAGCAGACUCGCAUUACUCGUUGCCAGGAAUAUAUC
..........(((.((((((.((.......(((((.(--(.................)).).)))).....)).)))))).)))....... ( -17.53, z-score =  -1.84, R)
>droYak2.chr3R 7255169 89 - 28832112
ACAAACAUCGUCCAGGCAACAAGCAUUCAACGAGCAG--CACACACAACAAAAGACAGCAGACUCGCAUUACCCGUUGCCAGGAAUAUAUC
..........(((.((((((..((.........))..--..................((......)).......)))))).)))....... ( -16.20, z-score =  -2.56, R)
>droAna3.scaffold_13340 4043079 74 - 23697760
ACAAACAUUGCCACGGCAACCGGCA---------------ACACACAA-AGGCAACAG-AGACUCGCAUUAUUCGUUGCCAGGAAUAUAUC
.......((((....))))((((((---------------((......-.(....).(-.....).........)))))).))........ ( -16.40, z-score =  -2.39, R)
>consensus
ACAAACAUCGUCCAGGCAACAAGCAUCCAACGAGCAG__CACACACAACAAAAGGCAGCAGACUCGCAUUACUCGUUGCCAGGAAUAUAUC
..........(((.((((((..((.........))......................((......)).......)))))).)))....... (-11.69 = -12.38 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 24,921,290 – 24,921,381
Length 91
Sequences 6
Columns 91
Reading direction reverse
Mean pairwise identity 86.75
Shannon entropy 0.25297
G+C content 0.48164
Mean single sequence MFE -30.58
Consensus MFE -21.33
Energy contribution -22.92
Covariance contribution 1.59
Combinations/Pair 1.08
Mean z-score -4.01
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.45
SVM RNA-class probability 0.998693
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 24921290 91 - 27905053
GAUAUAUUCCUGGCAACGAGUAAUGCGAGUCUGCCGCCUUUUGUUGUGUGUGCUCUGCUCGUUGGAUGCUUGUUGCCUGAACGAUGUUUGU
(((((.(((..(((((((((((..((((((..((((((.......).))).))...))))))....))))))))))).)))..)))))... ( -31.80, z-score =  -4.36, R)
>droSim1.chr3R 24604632 91 - 27517382
GAUAUAUUCCUGGCAACGAGUAAUGCGAGUCUGCUGCCUUUUGUUGUGUGUGCUCUGCUCGUUGGAUGCUUGUUGCCUGGACGAUGUUUGU
(((((..(((.(((((((((((..((((((..((((((.......).))).))...))))))....))))))))))).)))..)))))... ( -32.90, z-score =  -4.49, R)
>droSec1.super_4 3786026 91 - 6179234
GAUAUAUUCCUGGCAACGAGUAAUGCGAGUCUGCUGCCUUUUGUUGUGUGUGCUCUGCUCGUUGGAUGCUUGUUGCCUGGACGAUGUUUGU
(((((..(((.(((((((((((..((((((..((((((.......).))).))...))))))....))))))))))).)))..)))))... ( -32.90, z-score =  -4.49, R)
>droEre2.scaffold_4820 7359744 89 + 10470090
GAUAUAUUCCUGGCAACGAGUAAUGCGAGUCUGCUGCCUUUUGUUGUGUGUG--CUGCUCGUUGGAUGCUUGUUGCCUGGACGAUGUUUGC
(((((..(((.(((((((((((..((((((..((((((.......).))).)--).))))))....))))))))))).)))..)))))... ( -33.10, z-score =  -4.53, R)
>droYak2.chr3R 7255169 89 + 28832112
GAUAUAUUCCUGGCAACGGGUAAUGCGAGUCUGCUGUCUUUUGUUGUGUGUG--CUGCUCGUUGAAUGCUUGUUGCCUGGACGAUGUUUGU
(((((..(((.(((((((((((..((((((..((...(.........)...)--).))))))....))))))))))).)))..)))))... ( -31.20, z-score =  -4.28, R)
>droAna3.scaffold_13340 4043079 74 + 23697760
GAUAUAUUCCUGGCAACGAAUAAUGCGAGUCU-CUGUUGCCU-UUGUGUGU---------------UGCCGGUUGCCGUGGCAAUGUUUGU
.........(((((((((.((((.((((....-...))))..-)))).)))---------------))))))((((....))))....... ( -21.60, z-score =  -1.93, R)
>consensus
GAUAUAUUCCUGGCAACGAGUAAUGCGAGUCUGCUGCCUUUUGUUGUGUGUG__CUGCUCGUUGGAUGCUUGUUGCCUGGACGAUGUUUGU
(((((..(((.(((((((((((..((((((..........................))))))....))))))))))).)))..)))))... (-21.33 = -22.92 +   1.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:53:21 2011