Locus 12383

Sequence ID dm3.chr4
Location 215,182 – 215,281
Length 99
Max. P 0.999428
window17012 window17013

overview

Window 2

Location 215,182 – 215,281
Length 99
Sequences 3
Columns 100
Reading direction forward
Mean pairwise identity 57.86
Shannon entropy 0.54179
G+C content 0.29348
Mean single sequence MFE -18.83
Consensus MFE -9.15
Energy contribution -10.93
Covariance contribution 1.78
Combinations/Pair 1.17
Mean z-score -3.34
Structure conservation index 0.49
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.88
SVM RNA-class probability 0.999428
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr4 215182 99 + 1351857
AGGAACAAAAGAAGAUUUUAGACAAAUAAAAGGUAAAAAAUAGUAUUAUACAUAAUACA-UAGUAGUUGUGGCAGCACGUUGCAUAUAACUGUGUCUCAA
...................(((((..................((((((....)))))).-...((((((((((((....)))).)))))))))))))... ( -18.10, z-score =  -1.77, R)
>droSim1.chr4 761064 80 - 949497
AGGAGCACGAAAUGAUAUUC--CGAAUAUUAUUCGAAUACUAUUAUUGUUUUUAUUAUAACAAUAAGUGCUGCCAAGAACAG------------------
.((((((((((.((((((..--...)))))))))........((((((((........))))))))))))).))........------------------ ( -19.20, z-score =  -4.01, R)
>droSec1.super_52 163193 80 + 192374
AGGAGCACGAAAUGAUAUUC--CGAAUAUUAUUCGAAUACUAUUAUUGUUUUUAUUAUAACAAUAAGUGCUGCCAAAAACAC------------------
.((((((((((.((((((..--...)))))))))........((((((((........))))))))))))).))........------------------ ( -19.20, z-score =  -4.25, R)
>consensus
AGGAGCACGAAAUGAUAUUC__CGAAUAUUAUUCGAAUACUAUUAUUGUUUUUAUUAUAACAAUAAGUGCUGCCAAAAACAG__________________
.(.(((((..((((((((((...))))))))))..........(((((((........))))))).))))).)........................... ( -9.15 = -10.93 +   1.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 215,182 – 215,281
Length 99
Sequences 3
Columns 100
Reading direction reverse
Mean pairwise identity 57.86
Shannon entropy 0.54179
G+C content 0.29348
Mean single sequence MFE -15.73
Consensus MFE -5.58
Energy contribution -6.14
Covariance contribution 0.56
Combinations/Pair 1.20
Mean z-score -2.34
Structure conservation index 0.35
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.06
SVM RNA-class probability 0.884173
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr4 215182 99 - 1351857
UUGAGACACAGUUAUAUGCAACGUGCUGCCACAACUACUA-UGUAUUAUGUAUAAUACUAUUUUUUACCUUUUAUUUGUCUAAAAUCUUCUUUUGUUCCU
...(((((.((((....(((......)))...))))....-.((((((....))))))..................)))))................... ( -10.60, z-score =  -0.07, R)
>droSim1.chr4 761064 80 + 949497
------------------CUGUUCUUGGCAGCACUUAUUGUUAUAAUAAAAACAAUAAUAGUAUUCGAAUAAUAUUCG--GAAUAUCAUUUCGUGCUCCU
------------------........((.(((((((((((((........)))))))).....(((((((...)))))--))..........))))))). ( -18.30, z-score =  -3.63, R)
>droSec1.super_52 163193 80 - 192374
------------------GUGUUUUUGGCAGCACUUAUUGUUAUAAUAAAAACAAUAAUAGUAUUCGAAUAAUAUUCG--GAAUAUCAUUUCGUGCUCCU
------------------........((.(((((((((((((........)))))))).....(((((((...)))))--))..........))))))). ( -18.30, z-score =  -3.32, R)
>consensus
__________________CUGUUUUUGGCAGCACUUAUUGUUAUAAUAAAAACAAUAAUAGUAUUCGAAUAAUAUUCG__GAAUAUCAUUUCGUGCUCCU
..........................((.(((((.(((((((........)))))))...((((((..............))))))......))))))). ( -5.58 =  -6.14 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:01:01 2011