Locus 13474

Sequence ID dm3.chrX
Location 6,767,291 – 6,767,341
Length 50
Max. P 0.818148
window18560 window18561

overview

Window 0

Location 6,767,291 – 6,767,341
Length 50
Sequences 4
Columns 55
Reading direction forward
Mean pairwise identity 91.43
Shannon entropy 0.13275
G+C content 0.39434
Mean single sequence MFE -8.60
Consensus MFE -8.60
Energy contribution -8.60
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -0.81
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.44
SVM RNA-class probability 0.697660
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 6767291 50 + 22422827
CACAUUUUU-----ACUAAGUCGCUCUAAGGGUUGAGUUCUCAAUGUCUAGGCUU
.........-----........((.(((.(.(((((....))))).).))))).. (  -8.90, z-score =  -0.79, R)
>droSim1.chrX 5296292 50 + 17042790
CACAUUUUU-----ACUAAGUCGCUCUAAGGGUUGAGUUCUCAAUGUCUAGGCUU
.........-----........((.(((.(.(((((....))))).).))))).. (  -8.90, z-score =  -0.79, R)
>droSec1.super_4 6151303 50 - 6179234
CACAUUUUU-----ACUAAGUCGCUCUAAGGGUUGAGUUCUCAAUGUCUAGGCUU
.........-----........((.(((.(.(((((....))))).).))))).. (  -8.90, z-score =  -0.79, R)
>droAna3.scaffold_13117 1601912 53 - 5790199
CACAUUUUUUAAUUAUCAAGUCGCUCUAAGGGUUGAGUUCUCAAUGUCUAGGC--
......................((.(((.(.(((((....))))).).)))))-- (  -7.70, z-score =  -0.87, R)
>consensus
CACAUUUUU_____ACUAAGUCGCUCUAAGGGUUGAGUUCUCAAUGUCUAGGCUU
......................((.(((.(.(((((....))))).).))))).. ( -8.60 =  -8.60 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 6,767,291 – 6,767,341
Length 50
Sequences 4
Columns 55
Reading direction reverse
Mean pairwise identity 91.43
Shannon entropy 0.13275
G+C content 0.39434
Mean single sequence MFE -6.35
Consensus MFE -6.35
Energy contribution -6.35
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.02
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.79
SVM RNA-class probability 0.818148
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 6767291 50 - 22422827
AAGCCUAGACAUUGAGAACUCAACCCUUAGAGCGACUUAGU-----AAAAAUGUG
..((((((...((((....))))...)))).))........-----......... (  -6.40, z-score =  -0.82, R)
>droSim1.chrX 5296292 50 - 17042790
AAGCCUAGACAUUGAGAACUCAACCCUUAGAGCGACUUAGU-----AAAAAUGUG
..((((((...((((....))))...)))).))........-----......... (  -6.40, z-score =  -0.82, R)
>droSec1.super_4 6151303 50 + 6179234
AAGCCUAGACAUUGAGAACUCAACCCUUAGAGCGACUUAGU-----AAAAAUGUG
..((((((...((((....))))...)))).))........-----......... (  -6.40, z-score =  -0.82, R)
>droAna3.scaffold_13117 1601912 53 + 5790199
--GCCUAGACAUUGAGAACUCAACCCUUAGAGCGACUUGAUAAUUAAAAAAUGUG
--((((((...((((....))))...)))).))...................... (  -6.20, z-score =  -1.61, R)
>consensus
AAGCCUAGACAUUGAGAACUCAACCCUUAGAGCGACUUAGU_____AAAAAUGUG
..((((((...((((....))))...)))).))...................... ( -6.35 =  -6.35 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:22:10 2011