Locus 1545

Sequence ID dm3.chr2L
Location 11,964,177 – 11,964,283
Length 106
Max. P 0.990162
window2112 window2113

overview

Window 2

Location 11,964,177 – 11,964,278
Length 101
Sequences 5
Columns 103
Reading direction reverse
Mean pairwise identity 88.61
Shannon entropy 0.20109
G+C content 0.43381
Mean single sequence MFE -27.53
Consensus MFE -21.54
Energy contribution -21.98
Covariance contribution 0.44
Combinations/Pair 1.05
Mean z-score -2.76
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.00
SVM RNA-class probability 0.978628
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 11964177 101 - 23011544
CCGAGGAGAGGGCCAGGGAAUGGCAGAUCUCGUAGAUAAAAGUGGCUUAAACUAUGUAAGCCAUCAACGUUUUAUGAGAGUGGUAUAA--ACAACAGAUACGA
((.......))((((.....))))...(((((((((.....((((((((.......))))))))......)))))))))...((((..--.......)))).. ( -26.00, z-score =  -2.16, R)
>droEre2.scaffold_4929 13195318 89 + 26641161
------------CCACAGAAUGGCAGAUCUCGCAGAUAAAAGUGGCUUAAACUAUGUAAGCCAUCAGCGUUUUAUGAGAGUGGCAUAA--UGAACAGAUACGA
------------...((..(((.((..(((((.(((.....((((((((.......))))))))......))).))))).)).)))..--))........... ( -20.90, z-score =  -1.39, R)
>droYak2.chr2L 8386236 103 - 22324452
CCGAGGAGAGGGCCAGAGAAUGGCAGAUCUCGUAGAUAAAGAUGGCUUAAACUAUGUAAGCCAUCAGCGUUUUAUGAGUGUGGUAUAAAGAGCGCAGAUACGA
.....((((..((((.....))))...))))(((......(((((((((.......))))))))).(((((((...............)))))))...))).. ( -32.76, z-score =  -3.75, R)
>droSec1.super_16 163556 101 - 1878335
CCGAGGAGAGGGCCAGAGAAUGGCAGAUCUCGUAGAUAAAAGUGGCUUAAACUAUGUAAGCCAUCAACGUUUUAUGAGAGUCUUAUAA--AGCACAGAUACGA
.....((((..((((.....))))...))))(((.......((((((((.......))))))))....((((((((((...)))))))--))).....))).. ( -30.40, z-score =  -3.64, R)
>droSim1.chr2L 11771281 101 - 22036055
CCGAGGAGAGGGCCAGAGAAUGGCAGAUCUCGUAGAUAAAAGUGGCUUAAACUAUGUAAGCCAUCAACGUUUUAUGAGAGUGGUAUAA--AGCACAGAUACGA
((.......))((((.....))))...(((((((((.....((((((((.......))))))))......)))))))))(((.(....--).)))........ ( -27.60, z-score =  -2.85, R)
>consensus
CCGAGGAGAGGGCCAGAGAAUGGCAGAUCUCGUAGAUAAAAGUGGCUUAAACUAUGUAAGCCAUCAACGUUUUAUGAGAGUGGUAUAA__AGCACAGAUACGA
...........((((.....))))...(((((((((.....((((((((.......))))))))......)))))))))........................ (-21.54 = -21.98 +   0.44)

alignment

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secondary structure

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dotplot

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Window 3

Location 11,964,181 – 11,964,283
Length 102
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 86.19
Shannon entropy 0.24634
G+C content 0.43741
Mean single sequence MFE -28.19
Consensus MFE -23.09
Energy contribution -23.72
Covariance contribution 0.63
Combinations/Pair 1.08
Mean z-score -2.72
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.40
SVM RNA-class probability 0.990162
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 11964181 102 - 23011544
UGAGCCCGAGGAGAGGGCCAGGGAAUGGCAGAUCUCGUAGAUAAAAGUGGCUUAAACUAUGUAAGCCAUCAACGUUUUAUGAGAGUGGUAUAA--ACAACAGAU
((.((((.......))))))....(((.((..(((((((((.....((((((((.......))))))))......))))))))).)).)))..--......... ( -29.60, z-score =  -2.89, R)
>droEre2.scaffold_4929 13195322 85 + 26641161
-----------------CCACAGAAUGGCAGAUCUCGCAGAUAAAAGUGGCUUAAACUAUGUAAGCCAUCAGCGUUUUAUGAGAGUGGCAUAA--UGAACAGAU
-----------------...((..(((.((..(((((.(((.....((((((((.......))))))))......))).))))).)).)))..--))....... ( -20.90, z-score =  -1.67, R)
>droYak2.chr2L 8386240 104 - 22324452
CAAGCCCGAGGAGAGGGCCAGAGAAUGGCAGAUCUCGUAGAUAAAGAUGGCUUAAACUAUGUAAGCCAUCAGCGUUUUAUGAGUGUGGUAUAAAGAGCGCAGAU
..........((((..((((.....))))...)))).........(((((((((.......))))))))).(((((((...............))))))).... ( -31.26, z-score =  -2.94, R)
>droSec1.super_16 163560 102 - 1878335
UGAGCCCGAGGAGAGGGCCAGAGAAUGGCAGAUCUCGUAGAUAAAAGUGGCUUAAACUAUGUAAGCCAUCAACGUUUUAUGAGAGUCUUAUAA--AGCACAGAU
((.((.....((((..((((.....))))...(((((((((.....((((((((.......))))))))......))))))))).))))....--.)).))... ( -29.60, z-score =  -2.95, R)
>droSim1.chr2L 11771285 102 - 22036055
UGAGCCCGAGGAGAGGGCCAGAGAAUGGCAGAUCUCGUAGAUAAAAGUGGCUUAAACUAUGUAAGCCAUCAACGUUUUAUGAGAGUGGUAUAA--AGCACAGAU
((.((((.......))))))....(((.((..(((((((((.....((((((((.......))))))))......))))))))).)).)))..--......... ( -29.60, z-score =  -3.14, R)
>consensus
UGAGCCCGAGGAGAGGGCCAGAGAAUGGCAGAUCUCGUAGAUAAAAGUGGCUUAAACUAUGUAAGCCAUCAACGUUUUAUGAGAGUGGUAUAA__AGCACAGAU
...((((.......))))......(((.((..(((((((((.....((((((((.......))))))))......))))))))).)).)))............. (-23.09 = -23.72 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:34:02 2011