Locus 10915

Sequence ID dm3.chr3R
Location 17,433,833 – 17,433,950
Length 117
Max. P 0.887957
window15000 window15001

overview

Window 0

Location 17,433,833 – 17,433,950
Length 117
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 90.37
Shannon entropy 0.17433
G+C content 0.37371
Mean single sequence MFE -30.62
Consensus MFE -23.60
Energy contribution -23.64
Covariance contribution 0.04
Combinations/Pair 1.22
Mean z-score -2.33
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.08
SVM RNA-class probability 0.887957
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 17433833 117 + 27905053
AGCGUCUUCGAAUUUCCUGUGACUGCCAAUUUUAAAGUUCUCCAAACUGGAUUGCAAACUAAUUAUAGACAUUUUGGACUCAAUUAGGGGCAGUCAAUUAGGGGAAA-CGAAGUUCUC
.....(((((..(..((((((((((((.........((..(((.....)))..))...((((((.....(.....).....)))))).))))))))..))))..)..-)))))..... ( -34.10, z-score =  -2.97, R)
>droSim1.chr3R 23482843 118 - 27517382
AGCGUCUUUAAAUCUCCUGUGACUGCCAAUUUUAAAGUUCUCCACACUGGAUUGCAAACUAAUUAUAGACAUUUUAGACUCAAUUAGGGGCAGUCAAUUAGGGGAAAACGAAGUUCUC
.....((((...(((((((((((((((.........((..(((.....)))..))...((((((..((.(......).)).)))))).))))))))..)))))))....))))..... ( -30.70, z-score =  -2.39, R)
>droSec1.super_6 302994 117 - 4358794
AGCGUCUUUAAAUCUCCCGUGACUGCCAAUUUUAAAGUUCUCCACACUGGAUUGCAAACUAAUUAUAGACAUUUUAGACUCAAUUAGGGGCAGUCAAUUAGGGGAAA-CUAAGUUCUC
.....(((....(((((..((((((((.........((..(((.....)))..))...((((((..((.(......).)).)))))).))))))))....)))))..-..)))..... ( -28.60, z-score =  -2.01, R)
>droYak2.chr3R 6274280 114 + 28832112
AGCAUCUUUUUAUCUUUUGUGACUGCCAAUUCUAAAGUUCUUCAAACUGGAUUGCAAACUAAUUGUAGACAUUUUAGACUCAAUUAAGUGCAGUCAAUUAGGGUAGA----AGUUCUC
......((((((((((...(((((((((((((...((((.....))))))))))...((((((((.((.(......).))))))).))))))))))...))))))))----))..... ( -26.40, z-score =  -1.71, R)
>droEre2.scaffold_4770 13517885 117 - 17746568
AGGACCUUUUAAUCUCCAGUGACUGCCAAUUUUAAAGUUCUCCAAACUGGAUUGCAGACUAAUUAUAGACAUUUUAGACUCAAUUAGGGGCAGUCAAUUAGGGGAAA-AGAAGUUCUC
.(((.(((((..(((((..((((((((.........((..(((.....)))..))...((((((..((.(......).)).)))))).))))))))....)))))..-))))).))). ( -33.30, z-score =  -2.57, R)
>consensus
AGCGUCUUUAAAUCUCCUGUGACUGCCAAUUUUAAAGUUCUCCAAACUGGAUUGCAAACUAAUUAUAGACAUUUUAGACUCAAUUAGGGGCAGUCAAUUAGGGGAAA_CGAAGUUCUC
............((((((.((((((((.........((..(((.....)))..))...((((...........))))...........))))))))...))))))............. (-23.60 = -23.64 +   0.04)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 17,433,833 – 17,433,950
Length 117
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 90.37
Shannon entropy 0.17433
G+C content 0.37371
Mean single sequence MFE -27.04
Consensus MFE -21.54
Energy contribution -21.90
Covariance contribution 0.36
Combinations/Pair 1.14
Mean z-score -1.74
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.27
SVM RNA-class probability 0.622919
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 17433833 117 - 27905053
GAGAACUUCG-UUUCCCCUAAUUGACUGCCCCUAAUUGAGUCCAAAAUGUCUAUAAUUAGUUUGCAAUCCAGUUUGGAGAACUUUAAAAUUGGCAGUCACAGGAAAUUCGAAGACGCU
.....(((((-..(..(((...((((((((.(((((((((.(......).)).))))))).......(((.....))).............)))))))).)))..)..)))))..... ( -29.50, z-score =  -2.53, R)
>droSim1.chr3R 23482843 118 + 27517382
GAGAACUUCGUUUUCCCCUAAUUGACUGCCCCUAAUUGAGUCUAAAAUGUCUAUAAUUAGUUUGCAAUCCAGUGUGGAGAACUUUAAAAUUGGCAGUCACAGGAGAUUUAAAGACGCU
........(((((((.(((...((((((((.(((((((((.(......).)).)))))))((..((......))..)).............)))))))).))).)).....))))).. ( -27.00, z-score =  -1.53, R)
>droSec1.super_6 302994 117 + 4358794
GAGAACUUAG-UUUCCCCUAAUUGACUGCCCCUAAUUGAGUCUAAAAUGUCUAUAAUUAGUUUGCAAUCCAGUGUGGAGAACUUUAAAAUUGGCAGUCACGGGAGAUUUAAAGACGCU
.....(((((-((((((.....((((((((.(((((((((.(......).)).)))))))((..((......))..)).............)))))))).))))))))..)))..... ( -30.60, z-score =  -2.49, R)
>droYak2.chr3R 6274280 114 - 28832112
GAGAACU----UCUACCCUAAUUGACUGCACUUAAUUGAGUCUAAAAUGUCUACAAUUAGUUUGCAAUCCAGUUUGAAGAACUUUAGAAUUGGCAGUCACAAAAGAUAAAAAGAUGCU
.......----...........(((((((..(((((((((.(......).)).))))))).........(((((((((....))))).)))))))))))................... ( -19.30, z-score =  -0.11, R)
>droEre2.scaffold_4770 13517885 117 + 17746568
GAGAACUUCU-UUUCCCCUAAUUGACUGCCCCUAAUUGAGUCUAAAAUGUCUAUAAUUAGUCUGCAAUCCAGUUUGGAGAACUUUAAAAUUGGCAGUCACUGGAGAUUAAAAGGUCCU
..((.(((.(-..((.((....((((((((.(((((((((.(......).)).)))))))(((.(((......))).)))...........))))))))..)).))..).))).)).. ( -28.80, z-score =  -2.04, R)
>consensus
GAGAACUUCG_UUUCCCCUAAUUGACUGCCCCUAAUUGAGUCUAAAAUGUCUAUAAUUAGUUUGCAAUCCAGUUUGGAGAACUUUAAAAUUGGCAGUCACAGGAGAUUAAAAGACGCU
.....(((...(((((......((((((((.(((((((((.(......).)).))))))).......(((.....))).............))))))))..)))))....)))..... (-21.54 = -21.90 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:32:55 2011