Locus 13333

Sequence ID dm3.chrX
Location 5,910,119 – 5,910,209
Length 90
Max. P 0.962227
window18353 window18354

overview

Window 3

Location 5,910,119 – 5,910,209
Length 90
Sequences 3
Columns 90
Reading direction forward
Mean pairwise identity 96.27
Shannon entropy 0.05102
G+C content 0.32332
Mean single sequence MFE -16.03
Consensus MFE -14.93
Energy contribution -15.27
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.63
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.67
SVM RNA-class probability 0.782002
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 5910119 90 + 22422827
UUGAAAUUAAUAUUUAAGCGGGUAUCAAUCACGAAUGGGUUACAUAAUACCCCAGCUAAGAUGUAGAUAUCGAUUAUAAGACAUCAAAAC
((((.(((.((((((.((((((((((......))(((.....)))..)))))..))).)))))).))).))))................. ( -16.10, z-score =  -1.53, R)
>droSim1.chrX 4638218 88 + 17042790
UUAAAAUUAAUAU--AAGCGGGUAUCAAUCACGAAUGGGUUACAUAAUACCCCAGCUAAGAUGUAGAUAUCGAGUAUAAGAUAUCAAAAC
.........((((--.((((((((((......))(((.....)))..)))))..)))...)))).((((((........))))))..... ( -16.00, z-score =  -1.84, R)
>droSec1.super_4 5324056 88 - 6179234
UUGAAAUUAAUAU--AAGCGGGUAUCAAUCACGAAUGGGUUACAUAAUACCCCAGCUAAGAUGUAGAUAUCGAGUAUAAGAUAUCAAAAC
.........((((--.((((((((((......))(((.....)))..)))))..)))...)))).((((((........))))))..... ( -16.00, z-score =  -1.52, R)
>consensus
UUGAAAUUAAUAU__AAGCGGGUAUCAAUCACGAAUGGGUUACAUAAUACCCCAGCUAAGAUGUAGAUAUCGAGUAUAAGAUAUCAAAAC
.........((((...((((((((((......))(((.....)))..)))))..)))...)))).((((((........))))))..... (-14.93 = -15.27 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 5,910,119 – 5,910,209
Length 90
Sequences 3
Columns 90
Reading direction reverse
Mean pairwise identity 96.27
Shannon entropy 0.05102
G+C content 0.32332
Mean single sequence MFE -17.40
Consensus MFE -17.62
Energy contribution -17.40
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -1.73
Structure conservation index 1.01
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.70
SVM RNA-class probability 0.962227
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 5910119 90 - 22422827
GUUUUGAUGUCUUAUAAUCGAUAUCUACAUCUUAGCUGGGGUAUUAUGUAACCCAUUCGUGAUUGAUACCCGCUUAAAUAUUAAUUUCAA
((...((((((........)))))).)).....(((..((((((((....((......))...)))))))))))................ ( -17.40, z-score =  -1.46, R)
>droSim1.chrX 4638218 88 - 17042790
GUUUUGAUAUCUUAUACUCGAUAUCUACAUCUUAGCUGGGGUAUUAUGUAACCCAUUCGUGAUUGAUACCCGCUU--AUAUUAAUUUUAA
((...((((((........)))))).)).....(((..((((((((....((......))...))))))))))).--............. ( -17.40, z-score =  -1.89, R)
>droSec1.super_4 5324056 88 + 6179234
GUUUUGAUAUCUUAUACUCGAUAUCUACAUCUUAGCUGGGGUAUUAUGUAACCCAUUCGUGAUUGAUACCCGCUU--AUAUUAAUUUCAA
((...((((((........)))))).)).....(((..((((((((....((......))...))))))))))).--............. ( -17.40, z-score =  -1.84, R)
>consensus
GUUUUGAUAUCUUAUACUCGAUAUCUACAUCUUAGCUGGGGUAUUAUGUAACCCAUUCGUGAUUGAUACCCGCUU__AUAUUAAUUUCAA
((...((((((........)))))).)).....(((..((((((((....((......))...)))))))))))................ (-17.62 = -17.40 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:19:20 2011