Locus 1793

Sequence ID dm3.chr2L
Location 13,888,096 – 13,888,200
Length 104
Max. P 0.956583
window2467 window2468

overview

Window 7

Location 13,888,096 – 13,888,197
Length 101
Sequences 4
Columns 104
Reading direction reverse
Mean pairwise identity 95.49
Shannon entropy 0.06966
G+C content 0.48629
Mean single sequence MFE -26.15
Consensus MFE -23.75
Energy contribution -24.50
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.37
Structure conservation index 0.91
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.09
SVM RNA-class probability 0.539893
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 13888096 101 - 23011544
CUGCACAAGAAUUGGGUUUUCCUUCUCCGAUUCCGAUUUCGAUUCCAGCCGAUCCUCGGCUGCUGUCGUCCC---AACAAAAGGCAAAGAAAAUUAGCAAAGCC
.(((....((((((((.........))))))))...(((((((..((((((.....))))))..)))(((..---.......)))...))))....)))..... ( -27.30, z-score =  -1.70, R)
>droSim1.chr2L 13640289 104 - 22036055
CUGCACAAGAAUUGGGUUUUCCUUCUCCGAUUCCGAUUUCGAUUCCAGCCGAUCCUCGGCUGCCGUCGACCCAGCAACAAAAGGCAAAGAAAAUUAGCAAAGCC
.(((....((((((((.........)))))))).....(((((..((((((.....))))))..)))))....)))......(((................))) ( -28.09, z-score =  -1.53, R)
>droSec1.super_3 145138 104 - 7220098
CUGCACAAGAAUUGGGUUUUCCUUCUCCGAUUCCGAUUUCGAUUCCAGCCGAUCCUCGGCUGCCGUCGACCCAGCAACAAAAGGCAAAGAAAAUUAGCAAAGCC
.(((....((((((((.........)))))))).....(((((..((((((.....))))))..)))))....)))......(((................))) ( -28.09, z-score =  -1.53, R)
>droEre2.scaffold_4929 15056486 100 + 26641161
CUGCACAAGAAUUGGUUUUUCCUU-UCCGAUUCCGAUUUCGAUUCCAGCCGAUCCUCUGCUGCUGUCGACCC---AACAAAAGGCAAAGAAAAUUAGCAAAGCC
.(((....(((((((.........-.))))))).....(((((..((((.(.....).))))..)))))...---.....................)))..... ( -21.10, z-score =  -0.71, R)
>consensus
CUGCACAAGAAUUGGGUUUUCCUUCUCCGAUUCCGAUUUCGAUUCCAGCCGAUCCUCGGCUGCCGUCGACCC___AACAAAAGGCAAAGAAAAUUAGCAAAGCC
.(((....((((((((.........)))))))).....(((((..((((((.....))))))..)))))...........................)))..... (-23.75 = -24.50 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 13,888,099 – 13,888,200
Length 101
Sequences 4
Columns 104
Reading direction reverse
Mean pairwise identity 95.49
Shannon entropy 0.06966
G+C content 0.47650
Mean single sequence MFE -28.45
Consensus MFE -27.15
Energy contribution -27.90
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.07
Structure conservation index 0.95
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.63
SVM RNA-class probability 0.956583
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 13888099 101 - 23011544
AGCCUGCACAAGAAUUGGGUUUUCCUUCUCCGAUUCCGAUUUCGAUUCCAGCCGAUCCUCGGCUGCUGUCGUCCC---AACAAAAGGCAAAGAAAAUUAGCAAA
.((((......((((((((.........))))))))......((((..((((((.....))))))..))))....---......))))................ ( -29.10, z-score =  -2.22, R)
>droSim1.chr2L 13640292 104 - 22036055
AGCCUGCACAAGAAUUGGGUUUUCCUUCUCCGAUUCCGAUUUCGAUUCCAGCCGAUCCUCGGCUGCCGUCGACCCAGCAACAAAAGGCAAAGAAAAUUAGCAAA
.((((......((((((((.........)))))))).....(((((..((((((.....))))))..)))))............))))................ ( -30.10, z-score =  -2.12, R)
>droSec1.super_3 145141 104 - 7220098
AGCCUGCACAAGAAUUGGGUUUUCCUUCUCCGAUUCCGAUUUCGAUUCCAGCCGAUCCUCGGCUGCCGUCGACCCAGCAACAAAAGGCAAAGAAAAUUAGCAAA
.((((......((((((((.........)))))))).....(((((..((((((.....))))))..)))))............))))................ ( -30.10, z-score =  -2.12, R)
>droEre2.scaffold_4929 15056489 100 + 26641161
AGCCUGCACAAGAAUUGGUUUUUCCUU-UCCGAUUCCGAUUUCGAUUCCAGCCGAUCCUCUGCUGCUGUCGACCC---AACAAAAGGCAAAGAAAAUUAGCAAA
.((((......(((((((.........-.))))))).....(((((..((((.(.....).))))..)))))...---......))))................ ( -24.50, z-score =  -1.81, R)
>consensus
AGCCUGCACAAGAAUUGGGUUUUCCUUCUCCGAUUCCGAUUUCGAUUCCAGCCGAUCCUCGGCUGCCGUCGACCC___AACAAAAGGCAAAGAAAAUUAGCAAA
.((((......((((((((.........)))))))).....(((((..((((((.....))))))..)))))............))))................ (-27.15 = -27.90 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:38:57 2011