Locus 9769

Sequence ID dm3.chr3R
Location 8,781,786 – 8,781,891
Length 105
Max. P 0.866373
window13396 window13397

overview

Window 6

Location 8,781,786 – 8,781,891
Length 105
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 90.50
Shannon entropy 0.15885
G+C content 0.60689
Mean single sequence MFE -36.94
Consensus MFE -31.03
Energy contribution -30.83
Covariance contribution -0.20
Combinations/Pair 1.08
Mean z-score -1.69
Structure conservation index 0.84
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.44
SVM RNA-class probability 0.696494
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 8781786 105 + 27905053
CCAUCGCAGUCCACCCUCGCCACUCUGCAGCAUUCCUGUCCAGGAUUCUCUGGCUCUGGCUCUGGCUCUGACUGGCCUUUCUAAUGGCUGCGAAAGUGGCUGGUG
...........((((...((((((.((((((...((.(.(((((....)))))..).))....((((......)))).........))))))..)))))).)))) ( -34.60, z-score =  -0.59, R)
>droEre2.scaffold_4770 4877526 99 - 17746568
CCAUUGCAGUCCACCCUCGCCGCUCCGCAGCAUUCCUGUCCAGGAUUCUCUGGCUCUGG------CUCUGGCUGGCCUUUCUAAUGGCUGCGAAAGUGGCUGGUG
...........((((...((((((.((((((..((((....))))......((((..((------(....))))))).........))))))..)))))).)))) ( -36.90, z-score =  -1.35, R)
>droYak2.chr3R 13073743 99 + 28832112
CCAUCGCCGUCCACCCUCGCAGCUCCGCAGCAUUCCUGUCCAGGAUUCUCUGGCUCCGG------CUCUGGCUGGCCUUUCUAAUGGCUGCGAAAGUGGCUGGUG
....(((((.((((..(((((((((((.((...((((....))))..)).)))..((((------(....)))))..........))))))))..)))).))))) ( -40.10, z-score =  -2.34, R)
>droSec1.super_0 7906423 93 - 21120651
CCAUCGCAGUCCACCCUCGCCACUCCGCAGCAUUCCUGUCCAGGAUUCCCUGGCUCUG------------ACUGGCCUUUCUAAUGGCUGCGAAAGUGGCUGGUG
...........((((...((((((.((((((..((((....))))......((((...------------...)))).........))))))..)))))).)))) ( -34.00, z-score =  -2.32, R)
>droSim1.chr3R 14876885 105 - 27517382
CCAUCGCAGUCCACCCUCGCCACUCCGCAGCAUUCCUGUCCAGGAUUCCCUGGCUCUGGCUCUGGCUCUGACUGGCCUUUCUAAUGGCUGCGAAAGUGGCUGGUG
...........((((...((((((.((((((...((.(.(((((....)))))..).))....((((......)))).........))))))..)))))).)))) ( -39.10, z-score =  -1.87, R)
>consensus
CCAUCGCAGUCCACCCUCGCCACUCCGCAGCAUUCCUGUCCAGGAUUCUCUGGCUCUGG______CUCUGACUGGCCUUUCUAAUGGCUGCGAAAGUGGCUGGUG
...........((((...((((((.((((((..((((....))))......((((..................)))).........))))))..)))))).)))) (-31.03 = -30.83 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 8,781,786 – 8,781,891
Length 105
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 90.50
Shannon entropy 0.15885
G+C content 0.60689
Mean single sequence MFE -39.50
Consensus MFE -32.65
Energy contribution -33.45
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -2.05
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.98
SVM RNA-class probability 0.866373
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 8781786 105 - 27905053
CACCAGCCACUUUCGCAGCCAUUAGAAAGGCCAGUCAGAGCCAGAGCCAGAGCCAGAGAAUCCUGGACAGGAAUGCUGCAGAGUGGCGAGGGUGGACUGCGAUGG
((((.((((((((.(((((.(((.....(((........)))....((....((((......))))...))))))))))))))))))...))))........... ( -39.60, z-score =  -2.13, R)
>droEre2.scaffold_4770 4877526 99 + 17746568
CACCAGCCACUUUCGCAGCCAUUAGAAAGGCCAGCCAGAG------CCAGAGCCAGAGAAUCCUGGACAGGAAUGCUGCGGAGCGGCGAGGGUGGACUGCAAUGG
...(((((((((((((.(((........)))((((.....------((....((((......))))...))...)))).......)))))))))).)))...... ( -35.60, z-score =  -1.15, R)
>droYak2.chr3R 13073743 99 - 28832112
CACCAGCCACUUUCGCAGCCAUUAGAAAGGCCAGCCAGAG------CCGGAGCCAGAGAAUCCUGGACAGGAAUGCUGCGGAGCUGCGAGGGUGGACGGCGAUGG
(.((..(((((((((((((.........((....))....------(((.(((.......((((....))))..))).))).)))))))))))))..)).).... ( -40.60, z-score =  -2.23, R)
>droSec1.super_0 7906423 93 + 21120651
CACCAGCCACUUUCGCAGCCAUUAGAAAGGCCAGU------------CAGAGCCAGGGAAUCCUGGACAGGAAUGCUGCGGAGUGGCGAGGGUGGACUGCGAUGG
((((.(((((((.((((((.........(((....------------....)))......((((....))))..)))))))))))))...))))........... ( -38.10, z-score =  -2.30, R)
>droSim1.chr3R 14876885 105 + 27517382
CACCAGCCACUUUCGCAGCCAUUAGAAAGGCCAGUCAGAGCCAGAGCCAGAGCCAGGGAAUCCUGGACAGGAAUGCUGCGGAGUGGCGAGGGUGGACUGCGAUGG
((((.(((((((.((((((.(((.....(((........)))....((....(((((....)))))...))))))))))))))))))...))))........... ( -43.60, z-score =  -2.44, R)
>consensus
CACCAGCCACUUUCGCAGCCAUUAGAAAGGCCAGUCAGAG______CCAGAGCCAGAGAAUCCUGGACAGGAAUGCUGCGGAGUGGCGAGGGUGGACUGCGAUGG
((((.(((((((.((((((.........((((.................).)))......((((....))))..)))))))))))))...))))........... (-32.65 = -33.45 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:10:41 2011