Locus 1943

Sequence ID dm3.chr2L
Location 14,958,886 – 14,958,984
Length 98
Max. P 0.982742
window2682 window2683

overview

Window 2

Location 14,958,886 – 14,958,984
Length 98
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 97.96
Shannon entropy 0.03683
G+C content 0.35306
Mean single sequence MFE -11.08
Consensus MFE -10.49
Energy contribution -10.49
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.27
Structure conservation index 0.95
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.25
SVM RNA-class probability 0.610746
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 14958886 98 + 23011544
UACAUUUAUUUGUGCUUCUCACAUUUAUAUUGUUUUAUUUCCAGCCUGAUCUCCCUAUCCCUCCACUUCGUCGAAUGUUUGCUGGCCAUAAAUAUUAA
.(((..((..((((.....))))..))...)))(((((..(((((..(((......)))..((.((...)).))......)))))..)))))...... ( -10.60, z-score =  -0.87, R)
>droSim1.chr2L 14710282 98 + 22036055
UACAUUUAUUUGUGCUUCUCACAUUUAUAUUGUUUUAUUUCCAGCCUGAUCUCCCUAUCCCUCCACUUCGUCGUAUGUUUGCUGGCCAUAAAUAUUAA
.(((..((..((((.....))))..))...)))(((((..(((((..(((......))).....((......))......)))))..)))))...... ( -11.10, z-score =  -1.34, R)
>droSec1.super_3 1228722 98 + 7220098
UACAUUUAUUUGUGCUUCUCACACUUAUAUUGUUUUAUUUCCAGCCUGAUCUCCCUAUCCCUCCACUUCGUCGUAUGUUUGCUGGCCAUAAAUAUUAA
.(((..(((..(((.......)))..))).)))(((((..(((((..(((......))).....((......))......)))))..)))))...... ( -10.30, z-score =  -1.01, R)
>droYak2.chr2L 15071595 98 + 22324452
UACAUUUAUUUGUGCUUCUCACAUUUAUAUUGUUUUAUUUCCAGCUUGAUCUCCCUAUCCCUCCACUUCGUCGUAUGUUUGCUGGCUAUAAAUAUUAA
.(((..((..((((.....))))..))...)))(((((..(((((..(((......))).....((......))......)))))..)))))...... ( -12.30, z-score =  -1.94, R)
>droEre2.scaffold_4929 6704600 98 + 26641161
UACAUUUAUUUGUGCUUCUCACAUUUAUAUUGUUUUAUUUCCAGCCUGAUCUCCCUAUCCCUCCACUUUGUCGUAUGUUUGCUGGCCAUAAAUAUUAA
.(((..((..((((.....))))..))...)))(((((..(((((..(((......))).....((......))......)))))..)))))...... ( -11.10, z-score =  -1.16, R)
>consensus
UACAUUUAUUUGUGCUUCUCACAUUUAUAUUGUUUUAUUUCCAGCCUGAUCUCCCUAUCCCUCCACUUCGUCGUAUGUUUGCUGGCCAUAAAUAUUAA
.(((..((..((((.....))))..))...)))(((((..(((((...................................)))))..)))))...... (-10.49 = -10.49 +   0.00)

alignment

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secondary structure

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dotplot

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Window 3

Location 14,958,886 – 14,958,984
Length 98
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 97.96
Shannon entropy 0.03683
G+C content 0.35306
Mean single sequence MFE -17.48
Consensus MFE -16.74
Energy contribution -16.74
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.48
Structure conservation index 0.96
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.11
SVM RNA-class probability 0.982742
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 14958886 98 - 23011544
UUAAUAUUUAUGGCCAGCAAACAUUCGACGAAGUGGAGGGAUAGGGAGAUCAGGCUGGAAAUAAAACAAUAUAAAUGUGAGAAGCACAAAUAAAUGUA
...((((((((..(((((.....(((.((...)).))).(((......)))..))))).................((((.....)))).)))))))). ( -17.60, z-score =  -2.10, R)
>droSim1.chr2L 14710282 98 - 22036055
UUAAUAUUUAUGGCCAGCAAACAUACGACGAAGUGGAGGGAUAGGGAGAUCAGGCUGGAAAUAAAACAAUAUAAAUGUGAGAAGCACAAAUAAAUGUA
...((((((((..(((((.....(((......)))....(((......)))..))))).................((((.....)))).)))))))). ( -17.10, z-score =  -2.37, R)
>droSec1.super_3 1228722 98 - 7220098
UUAAUAUUUAUGGCCAGCAAACAUACGACGAAGUGGAGGGAUAGGGAGAUCAGGCUGGAAAUAAAACAAUAUAAGUGUGAGAAGCACAAAUAAAUGUA
...((((((((..(((((.....(((......)))....(((......)))..)))))................((((.....))))..)))))))). ( -18.30, z-score =  -2.55, R)
>droYak2.chr2L 15071595 98 - 22324452
UUAAUAUUUAUAGCCAGCAAACAUACGACGAAGUGGAGGGAUAGGGAGAUCAAGCUGGAAAUAAAACAAUAUAAAUGUGAGAAGCACAAAUAAAUGUA
...((((((((..(((((.....(((......)))....(((......)))..))))).................((((.....)))).)))))))). ( -17.30, z-score =  -2.97, R)
>droEre2.scaffold_4929 6704600 98 - 26641161
UUAAUAUUUAUGGCCAGCAAACAUACGACAAAGUGGAGGGAUAGGGAGAUCAGGCUGGAAAUAAAACAAUAUAAAUGUGAGAAGCACAAAUAAAUGUA
...((((((((..(((((.....(((......)))....(((......)))..))))).................((((.....)))).)))))))). ( -17.10, z-score =  -2.44, R)
>consensus
UUAAUAUUUAUGGCCAGCAAACAUACGACGAAGUGGAGGGAUAGGGAGAUCAGGCUGGAAAUAAAACAAUAUAAAUGUGAGAAGCACAAAUAAAUGUA
...((((((((..(((((...(((........)))....(((......)))..))))).................((((.....)))).)))))))). (-16.74 = -16.74 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:41:54 2011