Locus 11607

Sequence ID dm3.chr3R
Location 22,395,783 – 22,395,878
Length 95
Max. P 0.995199
window15945 window15946

overview

Window 5

Location 22,395,783 – 22,395,878
Length 95
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 92.76
Shannon entropy 0.11846
G+C content 0.33009
Mean single sequence MFE -15.00
Consensus MFE -12.39
Energy contribution -12.95
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -2.15
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.90
SVM RNA-class probability 0.847374
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22395783 95 + 27905053
CAGUUUUCUCUCCCCUUAAAAUAAGAGGA--AAAAAAUAGGAAAAAAAAACCAUCUUCCCAUUUUCGCGCUAGAAAACAAACAAAAAUGCAAUAAAC
..(((((((.(((.((((...)))).)))--..(((((.((((............)))).)))))......)))))))................... ( -13.40, z-score =  -2.30, R)
>droSim1.chr3R 22223728 97 + 27517382
CAGUUUUCUCUUCCCUUAAAAUAAGAGGAGAAAAAAAUAGGAAAAAAAAACGGUCUUCCCAUUUUCGCGCUAGAAAACAAACAAAAAUGCAAUAAAC
..(((((((((((.((((...)))).)))))..(((((.((((............)))).))))).......))))))................... ( -14.50, z-score =  -1.27, R)
>droSec1.super_13 1170943 96 + 2104621
CAGUUUUCUCUCCCCUUAAAAUAAGAGGAGAAAAAAAUAGGAAAAAAAAGC-GUCUUCCCAUUUUCGCGCUAGAAAACAAACAAAAAUGCAAUAAAC
..(((((((((((.((((...)))).))))).................(((-((............))))).))))))................... ( -18.70, z-score =  -3.12, R)
>droEre2.scaffold_4820 4810070 91 - 10470090
CAGUUUUCUCCCCCCUUUAAAUAAGAGGA---CAAAAUAGGAAAAAAA---CGUCUUCCCAUUUUCGCGCUAGAAAACAAACAAAAAUGCAAUAAAC
..(((((((....(((((.....))))).---.(((((.((((.....---....)))).)))))......)))))))................... ( -13.40, z-score =  -1.91, R)
>consensus
CAGUUUUCUCUCCCCUUAAAAUAAGAGGA__AAAAAAUAGGAAAAAAAAACCGUCUUCCCAUUUUCGCGCUAGAAAACAAACAAAAAUGCAAUAAAC
..(((((((((((.(((.....))).))))...(((((.((((............)))).)))))......)))))))................... (-12.39 = -12.95 +   0.56)

alignment

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secondary structure

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dotplot

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Window 6

Location 22,395,783 – 22,395,878
Length 95
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 92.76
Shannon entropy 0.11846
G+C content 0.33009
Mean single sequence MFE -25.57
Consensus MFE -23.74
Energy contribution -24.55
Covariance contribution 0.81
Combinations/Pair 1.04
Mean z-score -3.02
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.78
SVM RNA-class probability 0.995199
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22395783 95 - 27905053
GUUUAUUGCAUUUUUGUUUGUUUUCUAGCGCGAAAAUGGGAAGAUGGUUUUUUUUUCCUAUUUUUU--UCCUCUUAUUUUAAGGGGAGAGAAAACUG
...................(((((((.....(((((((((((((........)))))))))))))(--((((((((...)))))))))))))))).. ( -27.20, z-score =  -3.65, R)
>droSim1.chr3R 22223728 97 - 27517382
GUUUAUUGCAUUUUUGUUUGUUUUCUAGCGCGAAAAUGGGAAGACCGUUUUUUUUUCCUAUUUUUUUCUCCUCUUAUUUUAAGGGAAGAGAAAACUG
((((.((.(((((((((..(((....)))))))))))).)))))).(((((((((((((.......................))))))))))))).. ( -22.40, z-score =  -1.99, R)
>droSec1.super_13 1170943 96 - 2104621
GUUUAUUGCAUUUUUGUUUGUUUUCUAGCGCGAAAAUGGGAAGAC-GCUUUUUUUUCCUAUUUUUUUCUCCUCUUAUUUUAAGGGGAGAGAAAACUG
...................((((((......(((((((((((((.-......))))))))))))).((((((((((...)))))))))))))))).. ( -28.60, z-score =  -3.95, R)
>droEre2.scaffold_4820 4810070 91 + 10470090
GUUUAUUGCAUUUUUGUUUGUUUUCUAGCGCGAAAAUGGGAAGACG---UUUUUUUCCUAUUUUG---UCCUCUUAUUUAAAGGGGGGAGAAAACUG
((((.((.(((((((((..(((....)))))))))))).))))))(---((((((((((.(((((---..........))))).))))))))))).. ( -24.10, z-score =  -2.50, R)
>consensus
GUUUAUUGCAUUUUUGUUUGUUUUCUAGCGCGAAAAUGGGAAGACGGUUUUUUUUUCCUAUUUUUU__UCCUCUUAUUUUAAGGGGAGAGAAAACUG
...................(((((((.....(((((((((((((........)))))))))))))..((((((((.....))))))))))))))).. (-23.74 = -24.55 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:46:06 2011