Locus 10199

Sequence ID dm3.chr3R
Location 12,101,818 – 12,101,910
Length 92
Max. P 0.866601
window14027 window14028

overview

Window 7

Location 12,101,818 – 12,101,910
Length 92
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 88.71
Shannon entropy 0.18888
G+C content 0.49007
Mean single sequence MFE -27.67
Consensus MFE -20.24
Energy contribution -21.28
Covariance contribution 1.04
Combinations/Pair 1.04
Mean z-score -2.38
Structure conservation index 0.73
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.98
SVM RNA-class probability 0.866601
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 12101818 92 + 27905053
UAAUACCCACAUACAUACAUAUGUGGGUGCGUGAUAGAUAGCACCGGUCUUUCGUGUAGGAGAGCGGGAAACGAAGUGCACACAACUCACGC
....(((((((((......)))))))))((((((......((((((.(((((......))))).))(....)...)))).......)))))) ( -32.92, z-score =  -3.58, R)
>droSim1.chr3R 18153387 87 - 27517382
UAAUACCCACAUACAUA----UGUGGGUGCGUGAUAGAUAGCACCGGUCUUU-GUGUAGGAGAGCGGGAAACGAAGUGCACACAACUCACGC
....((((((((....)----)))))))((((((......((((((.(((((-.....))))).))(....)...)))).......)))))) ( -32.22, z-score =  -3.66, R)
>droSec1.super_12 77326 87 - 2123299
UAAUACCCACAUACAUA----UGUGGGUGCGUGAUAGAUAGCACCGGUCUUU-GUGUAGGAGAGCGGGAAACGAAGUGCACACAACUCACGC
....((((((((....)----)))))))((((((......((((((.(((((-.....))))).))(....)...)))).......)))))) ( -32.22, z-score =  -3.66, R)
>droYak2.chr3R 14504094 83 - 28832112
UAAUACCCGCAUA--------UGUGGGUGCGUGAUAGAUACCACCGGUCUUU-GUGUAGGAAAGCGGGAAACGAAGUGCACACAACUCACGC
....((((((...--------.))))))((((((.((((.......))))((-((((.(.(...((.....))...).))))))).)))))) ( -25.50, z-score =  -1.39, R)
>droEre2.scaffold_4770 11626214 75 + 17746568
UAAUAGCCACAUA--------UGUGGGUGCGUGAUAGAUACCACCGGUCUUU-UUGUAGGAAA--------CGAAGUGCACACAACUCACGC
......((((...--------.))))..((((((.((((.......))))..-.....(....--------)..............)))))) ( -15.50, z-score =   0.40, R)
>consensus
UAAUACCCACAUACAUA____UGUGGGUGCGUGAUAGAUAGCACCGGUCUUU_GUGUAGGAGAGCGGGAAACGAAGUGCACACAACUCACGC
....(((((((..........)))))))((((((.........(((.(((((......))))).)))........((....))...)))))) (-20.24 = -21.28 +   1.04)

alignment

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secondary structure

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dotplot

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Window 8

Location 12,101,818 – 12,101,910
Length 92
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 88.71
Shannon entropy 0.18888
G+C content 0.49007
Mean single sequence MFE -26.13
Consensus MFE -20.38
Energy contribution -21.18
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -2.05
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.77
SVM RNA-class probability 0.813360
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 12101818 92 - 27905053
GCGUGAGUUGUGUGCACUUCGUUUCCCGCUCUCCUACACGAAAGACCGGUGCUAUCUAUCACGCACCCACAUAUGUAUGUAUGUGGGUAUUA
((((((...(((.(((((..((((..((..........))..)))).))))))))...))))))((((((((((....)))))))))).... ( -34.00, z-score =  -3.80, R)
>droSim1.chr3R 18153387 87 + 27517382
GCGUGAGUUGUGUGCACUUCGUUUCCCGCUCUCCUACAC-AAAGACCGGUGCUAUCUAUCACGCACCCACA----UAUGUAUGUGGGUAUUA
((((((...(((.(((((..((((...............-..)))).))))))))...))))))(((((((----(....)))))))).... ( -28.63, z-score =  -2.83, R)
>droSec1.super_12 77326 87 + 2123299
GCGUGAGUUGUGUGCACUUCGUUUCCCGCUCUCCUACAC-AAAGACCGGUGCUAUCUAUCACGCACCCACA----UAUGUAUGUGGGUAUUA
((((((...(((.(((((..((((...............-..)))).))))))))...))))))(((((((----(....)))))))).... ( -28.63, z-score =  -2.83, R)
>droYak2.chr3R 14504094 83 + 28832112
GCGUGAGUUGUGUGCACUUCGUUUCCCGCUUUCCUACAC-AAAGACCGGUGGUAUCUAUCACGCACCCACA--------UAUGCGGGUAUUA
((((((.(((((((.....((.....))......)))))-))..(((...))).....))))))((((.(.--------...).)))).... ( -21.50, z-score =  -0.48, R)
>droEre2.scaffold_4770 11626214 75 - 17746568
GCGUGAGUUGUGUGCACUUCG--------UUUCCUACAA-AAAGACCGGUGGUAUCUAUCACGCACCCACA--------UAUGUGGCUAUUA
((((((...(.(((((((..(--------(((.......-..)))).))).)))))..))))))..((((.--------...))))...... ( -17.90, z-score =  -0.29, R)
>consensus
GCGUGAGUUGUGUGCACUUCGUUUCCCGCUCUCCUACAC_AAAGACCGGUGCUAUCUAUCACGCACCCACA____UAUGUAUGUGGGUAUUA
((((((...(...(((((((.......................))..)))))...)..))))))(((((((..........))))))).... (-20.38 = -21.18 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:19:24 2011