Locus 9246

Sequence ID dm3.chr3R
Location 5,170,853 – 5,170,955
Length 102
Max. P 0.704675
window12674 window12675

overview

Window 4

Location 5,170,853 – 5,170,955
Length 102
Sequences 5
Columns 102
Reading direction forward
Mean pairwise identity 96.47
Shannon entropy 0.06150
G+C content 0.38779
Mean single sequence MFE -26.02
Consensus MFE -24.26
Energy contribution -24.86
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.42
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.37
SVM RNA-class probability 0.665386
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 5170853 102 + 27905053
CUUGAUUAAAUCCCAUUGAAAAUAGGCAUUUAGAAUGCACAUAUAUCGGCUUUUUUUGGGAGCACAAUUACCGCGUCCAAAUGCGGGCAUAGAUUUCAAUGU
.............((((((((....((((.....))))...(((..(.((....(((((..((.........))..))))).)).)..)))..)))))))). ( -23.10, z-score =  -0.86, R)
>droSim1.chr3R 11367693 102 - 27517382
CUUGAUUAAAUCCCAUUGAAAAUGGGCAUUUAGUAUGCACAUAUAUCGGCUUUUUUUGGGAGCACAAUUACCGCGUCGAAAUGCGGGCAUAGAUUUCAAUGU
.(((((((((((((((.....))))).))))))(((((..........(((((.....))))).......((((((....)))))))))))....))))... ( -27.40, z-score =  -1.80, R)
>droSec1.super_0 4396279 102 - 21120651
CUUGAUUAAAUCCCAUUGAAAAUGGGCAUUUAGUAUGCACAUAUAUCGGCUUUUUUUGGGAGCACAAUUACCGCGUCGAAAUGCGGGCAUAGAUUUCAAUGU
.(((((((((((((((.....))))).))))))(((((..........(((((.....))))).......((((((....)))))))))))....))))... ( -27.40, z-score =  -1.80, R)
>droYak2.chr3R 9217203 101 + 28832112
CUUGAUUAAAUCCCAUUGAAAAUGGGCAUUUAGUAUGCACAUAUAUCGGCUUUUUU-GGGAGCACAAUUACCGCGUUGAAAUGCGGGCAUAGAUUUCAAUGU
.(((((((((((((((.....))))).))))))(((((..........(((((...-.))))).......((((((....)))))))))))....))))... ( -27.50, z-score =  -1.85, R)
>droEre2.scaffold_4770 1309960 101 - 17746568
CUUGAUUAAAUCCCAUUGUAAAUGGGCAUUUAGUAUGCACAUAUAUCGGGUUUUUU-GGGAGCACAAUUACCGCGUUGAAAUGCGGGCAUAGAUAUCAAUGU
.(((((((((((((((.....))))).))))).(((((...........((((...-..)))).......((((((....)))))))))))...)))))... ( -24.70, z-score =  -0.79, R)
>consensus
CUUGAUUAAAUCCCAUUGAAAAUGGGCAUUUAGUAUGCACAUAUAUCGGCUUUUUUUGGGAGCACAAUUACCGCGUCGAAAUGCGGGCAUAGAUUUCAAUGU
.(((((((((((((((.....))))).))))))(((((..........(((((.....))))).......((((((....)))))))))))....))))... (-24.26 = -24.86 +   0.60)

alignment

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secondary structure

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dotplot

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Window 5

Location 5,170,853 – 5,170,955
Length 102
Sequences 5
Columns 102
Reading direction reverse
Mean pairwise identity 96.47
Shannon entropy 0.06150
G+C content 0.38779
Mean single sequence MFE -22.54
Consensus MFE -20.68
Energy contribution -20.92
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.54
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.46
SVM RNA-class probability 0.704675
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 5170853 102 - 27905053
ACAUUGAAAUCUAUGCCCGCAUUUGGACGCGGUAAUUGUGCUCCCAAAAAAAGCCGAUAUAUGUGCAUUCUAAAUGCCUAUUUUCAAUGGGAUUUAAUCAAG
.((((((((.........(((((((((((((...((((.(((.........)))))))...))))...)))))))))....))))))))............. ( -22.72, z-score =  -1.12, R)
>droSim1.chr3R 11367693 102 + 27517382
ACAUUGAAAUCUAUGCCCGCAUUUCGACGCGGUAAUUGUGCUCCCAAAAAAAGCCGAUAUAUGUGCAUACUAAAUGCCCAUUUUCAAUGGGAUUUAAUCAAG
...((((....(((((((((........))))..((((.(((.........)))))))......))))).(((((.(((((.....)))))))))).)))). ( -22.90, z-score =  -1.58, R)
>droSec1.super_0 4396279 102 + 21120651
ACAUUGAAAUCUAUGCCCGCAUUUCGACGCGGUAAUUGUGCUCCCAAAAAAAGCCGAUAUAUGUGCAUACUAAAUGCCCAUUUUCAAUGGGAUUUAAUCAAG
...((((....(((((((((........))))..((((.(((.........)))))))......))))).(((((.(((((.....)))))))))).)))). ( -22.90, z-score =  -1.58, R)
>droYak2.chr3R 9217203 101 - 28832112
ACAUUGAAAUCUAUGCCCGCAUUUCAACGCGGUAAUUGUGCUCCC-AAAAAAGCCGAUAUAUGUGCAUACUAAAUGCCCAUUUUCAAUGGGAUUUAAUCAAG
...((((....(((((((((........))))..((((.(((...-.....)))))))......))))).(((((.(((((.....)))))))))).)))). ( -23.70, z-score =  -2.10, R)
>droEre2.scaffold_4770 1309960 101 + 17746568
ACAUUGAUAUCUAUGCCCGCAUUUCAACGCGGUAAUUGUGCUCCC-AAAAAACCCGAUAUAUGUGCAUACUAAAUGCCCAUUUACAAUGGGAUUUAAUCAAG
...(((((...(((((..((((.....((.(((..(((......)-))...)))))....))))))))).(((((.(((((.....))))))))))))))). ( -20.50, z-score =  -1.33, R)
>consensus
ACAUUGAAAUCUAUGCCCGCAUUUCGACGCGGUAAUUGUGCUCCCAAAAAAAGCCGAUAUAUGUGCAUACUAAAUGCCCAUUUUCAAUGGGAUUUAAUCAAG
...((((....(((((((((........))))..((((.(((.........)))))))......))))).(((((.(((((.....)))))))))).)))). (-20.68 = -20.92 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:00:40 2011