Locus 4795

Sequence ID dm3.chr2R
Location 15,652,599 – 15,652,654
Length 55
Max. P 0.983968
window6587 window6588

overview

Window 7

Location 15,652,599 – 15,652,654
Length 55
Sequences 3
Columns 55
Reading direction forward
Mean pairwise identity 75.31
Shannon entropy 0.33393
G+C content 0.52762
Mean single sequence MFE -15.83
Consensus MFE -13.52
Energy contribution -13.20
Covariance contribution -0.32
Combinations/Pair 1.44
Mean z-score -2.11
Structure conservation index 0.85
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.15
SVM RNA-class probability 0.983968
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15652599 55 + 21146708
GCGCCCGACGCUGCUUAAUUUCGGUGAUCGGACGAGAACCGAUGUAUUCAGCGUG
.......((((((..((...(((((..((....))..)))))..))..)))))). ( -20.00, z-score =  -2.30, R)
>anoGam1.chr2L 13360191 52 + 48795086
---CCCGAUGUUGCUUAACUUCGGUGAUCGGACGAGAACCGGUGUUUUCAACAUG
---....((((((...(((.(((((..((....))..))))).)))..)))))). ( -16.40, z-score =  -2.14, R)
>apiMel3.GroupUn 29499591 52 + 399230636
---CCCGACGCAGCUUGACUUUGCUGAUCGAACGAGAACCAAUAGUUCCUACGUG
---..(((..((((........)))).))).(((.((((.....))))...))). ( -11.10, z-score =  -1.89, R)
>consensus
___CCCGACGCUGCUUAACUUCGGUGAUCGGACGAGAACCGAUGUUUUCAACGUG
.......((((((...(((.(((((..((....))..))))).)))..)))))). (-13.52 = -13.20 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 15,652,599 – 15,652,654
Length 55
Sequences 3
Columns 55
Reading direction reverse
Mean pairwise identity 75.31
Shannon entropy 0.33393
G+C content 0.52762
Mean single sequence MFE -14.27
Consensus MFE -11.33
Energy contribution -10.22
Covariance contribution -1.11
Combinations/Pair 1.38
Mean z-score -1.40
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.72
SVM RNA-class probability 0.797789
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 15652599 55 - 21146708
CACGCUGAAUACAUCGGUUCUCGUCCGAUCACCGAAAUUAAGCAGCGUCGGGCGC
.((((((......(((((..((....))..))))).......))))))....... ( -15.82, z-score =  -1.10, R)
>anoGam1.chr2L 13360191 52 - 48795086
CAUGUUGAAAACACCGGUUCUCGUCCGAUCACCGAAGUUAAGCAACAUCGGG---
.((((((..(((..((((..((....))..))))..)))...))))))....--- ( -12.60, z-score =  -1.24, R)
>apiMel3.GroupUn 29499591 52 - 399230636
CACGUAGGAACUAUUGGUUCUCGUUCGAUCAGCAAAGUCAAGCUGCGUCGGG---
.(((..(((((.....))))))))(((((((((........)))).))))).--- ( -14.40, z-score =  -1.88, R)
>consensus
CACGUUGAAAACAUCGGUUCUCGUCCGAUCACCGAAGUUAAGCAGCGUCGGG___
.((((((......(((((..((....))..))))).......))))))....... (-11.33 = -10.22 +  -1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:36:08 2011