Locus 8852

Sequence ID dm3.chr3R
Location 2,132,362 – 2,132,457
Length 95
Max. P 0.998025
window12147 window12148

overview

Window 7

Location 2,132,362 – 2,132,457
Length 95
Sequences 3
Columns 96
Reading direction forward
Mean pairwise identity 91.67
Shannon entropy 0.11479
G+C content 0.33432
Mean single sequence MFE -24.93
Consensus MFE -21.50
Energy contribution -22.07
Covariance contribution 0.56
Combinations/Pair 1.15
Mean z-score -4.00
Structure conservation index 0.86
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.24
SVM RNA-class probability 0.998025
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 2132362 95 + 27905053
UAAUCAAAUAGUUUUAACUCGGAUUAGUGA-UUUGCACUACCAAUAUUAACUGAUAUUGGAAAACCCUAGAAGUUGAGAUUUUAUUCACACUUAUA
.........((((((((((.((..(((((.-....)))))((((((((....)))))))).....))....))))))))))............... ( -18.50, z-score =  -2.39, R)
>droSec1.super_6 2218767 96 + 4358794
UGAACAAAUAGCUUAAACUCGGAUUAGUGCCUUUGCACUACCAAUAUCAACUGAUAUUGGAAAACCCUAGAAGUCGAGAGUUUAUGCACACUUAUA
..........((.(((((((.(((((((((....))))).((((((((....))))))))...........))))..))))))).))......... ( -28.90, z-score =  -5.37, R)
>droSim1.chr3R 2163094 96 + 27517382
UGAACAAAUAGUUUAAGCUCGGAUUAGUGCCUUUGCACUACCAAUAUCAACUGAUAUUGGAAAACACUAGAAGUCGAGAGUUUAUGCACACUUAUA
..........((.(((((((.(((((((((....))))).((((((((....))))))))...........))))..))))))).))......... ( -27.40, z-score =  -4.22, R)
>consensus
UGAACAAAUAGUUUAAACUCGGAUUAGUGCCUUUGCACUACCAAUAUCAACUGAUAUUGGAAAACCCUAGAAGUCGAGAGUUUAUGCACACUUAUA
..........((.(((((((.(((((((((....))))).((((((((....))))))))...........))))..))))))).))......... (-21.50 = -22.07 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 2,132,362 – 2,132,457
Length 95
Sequences 3
Columns 96
Reading direction reverse
Mean pairwise identity 91.67
Shannon entropy 0.11479
G+C content 0.33432
Mean single sequence MFE -22.60
Consensus MFE -17.52
Energy contribution -18.97
Covariance contribution 1.45
Combinations/Pair 1.04
Mean z-score -2.39
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.85
SVM RNA-class probability 0.835665
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 2132362 95 - 27905053
UAUAAGUGUGAAUAAAAUCUCAACUUCUAGGGUUUUCCAAUAUCAGUUAAUAUUGGUAGUGCAAA-UCACUAAUCCGAGUUAAAACUAUUUGAUUA
((.((((.(((........))))))).))((((...(((((((......)))))))(((((....-.))))))))).(((((((....))))))). ( -14.80, z-score =  -0.70, R)
>droSec1.super_6 2218767 96 - 4358794
UAUAAGUGUGCAUAAACUCUCGACUUCUAGGGUUUUCCAAUAUCAGUUGAUAUUGGUAGUGCAAAGGCACUAAUCCGAGUUUAAGCUAUUUGUUCA
.(((((((.((.(((((((..(....)..((((...((((((((....))))))))((((((....))))))))))))))))).)))))))))... ( -31.30, z-score =  -4.69, R)
>droSim1.chr3R 2163094 96 - 27517382
UAUAAGUGUGCAUAAACUCUCGACUUCUAGUGUUUUCCAAUAUCAGUUGAUAUUGGUAGUGCAAAGGCACUAAUCCGAGCUUAAACUAUUUGUUCA
....(((((((((((((.((.(....).)).)))).((((((((....))))))))..))))....))))).....((((...........)))). ( -21.70, z-score =  -1.78, R)
>consensus
UAUAAGUGUGCAUAAACUCUCGACUUCUAGGGUUUUCCAAUAUCAGUUGAUAUUGGUAGUGCAAAGGCACUAAUCCGAGUUUAAACUAUUUGUUCA
..(((((((...(((((((.................((((((((....))))))))((((((....))))))....))))))).)).))))).... (-17.52 = -18.97 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:53:21 2011