Locus 15135

Sequence ID dm3.chrX
Location 17,546,015 – 17,546,093
Length 78
Max. P 0.690664
window20855 window20856

overview

Window 5

Location 17,546,015 – 17,546,093
Length 78
Sequences 4
Columns 78
Reading direction forward
Mean pairwise identity 93.38
Shannon entropy 0.10643
G+C content 0.65781
Mean single sequence MFE -30.73
Consensus MFE -24.73
Energy contribution -26.23
Covariance contribution 1.50
Combinations/Pair 1.00
Mean z-score -2.08
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.43
SVM RNA-class probability 0.690664
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17546015 78 + 22422827
AGCCAUCCCGCUCUGGCGCACACACUCCCAGCAGCGGGGCAUCUCGCUCUCUCUGCGUGCUCGCUGGCUGCGUGUGUG
.((((........)))).(((((((...((((((((((.((...(((.......))))))))))).)))).))))))) ( -33.10, z-score =  -1.50, R)
>droSim1.chrX 3619800 78 - 17042790
AGCCAUCCCGCUCUGGCACACACACUCCCAGCAGCGGGGCAUCUCGCUCUCUCUGCGUGCUCGCUGGCUGCGUGUGUG
.((((........)))).(((((((...((((((((((.((...(((.......))))))))))).)))).))))))) ( -33.40, z-score =  -2.12, R)
>droSec1.super_17 1388674 78 + 1527944
AGCCAUCCCGCUCUGGCACACACACUCCCAGCAGCGGGGCAUCUCGCUCUCUCUGCGUGCUCGCUGGCUGCGUGUGUG
.((((........)))).(((((((...((((((((((.((...(((.......))))))))))).)))).))))))) ( -33.40, z-score =  -2.12, R)
>droYak2.chrX 16173389 76 + 21770863
AACCAUCCCGCUCUAGCGCACACACUCCCAGCAUCACGGCAUCUCGCUCUCUC--CGUGCUCGCAUGCUGCGUGUGUG
........(((....)))(((((((...(((((((((((.............)--)))).....)))))).))))))) ( -23.02, z-score =  -2.58, R)
>consensus
AGCCAUCCCGCUCUGGCACACACACUCCCAGCAGCGGGGCAUCUCGCUCUCUCUGCGUGCUCGCUGGCUGCGUGUGUG
.((((........)))).(((((((...((((((((.((((...(((.......))))))))))).)))).))))))) (-24.73 = -26.23 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 17,546,015 – 17,546,093
Length 78
Sequences 4
Columns 78
Reading direction reverse
Mean pairwise identity 93.38
Shannon entropy 0.10643
G+C content 0.65781
Mean single sequence MFE -31.40
Consensus MFE -27.81
Energy contribution -28.00
Covariance contribution 0.19
Combinations/Pair 1.12
Mean z-score -1.40
Structure conservation index 0.89
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.12
SVM RNA-class probability 0.550956
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17546015 78 - 22422827
CACACACGCAGCCAGCGAGCACGCAGAGAGAGCGAGAUGCCCCGCUGCUGGGAGUGUGUGCGCCAGAGCGGGAUGGCU
(((((((.((((.((((.((((((.......)))...)))..))))))))...))))))).((((........)))). ( -32.80, z-score =  -1.28, R)
>droSim1.chrX 3619800 78 + 17042790
CACACACGCAGCCAGCGAGCACGCAGAGAGAGCGAGAUGCCCCGCUGCUGGGAGUGUGUGUGCCAGAGCGGGAUGGCU
.((((((((..(((((.(((.(((.......))).(......)))))))))..))))))))((((........)))). ( -32.80, z-score =  -1.47, R)
>droSec1.super_17 1388674 78 - 1527944
CACACACGCAGCCAGCGAGCACGCAGAGAGAGCGAGAUGCCCCGCUGCUGGGAGUGUGUGUGCCAGAGCGGGAUGGCU
.((((((((..(((((.(((.(((.......))).(......)))))))))..))))))))((((........)))). ( -32.80, z-score =  -1.47, R)
>droYak2.chrX 16173389 76 - 21770863
CACACACGCAGCAUGCGAGCACG--GAGAGAGCGAGAUGCCGUGAUGCUGGGAGUGUGUGCGCUAGAGCGGGAUGGUU
(((((((.(((((((((.(((((--.......))...)))))).))))))...)))))))(((....)))........ ( -27.20, z-score =  -1.40, R)
>consensus
CACACACGCAGCCAGCGAGCACGCAGAGAGAGCGAGAUGCCCCGCUGCUGGGAGUGUGUGCGCCAGAGCGGGAUGGCU
(((((((.((((.((((.((((((.......)))...)))..))))))))...))))))).((((........)))). (-27.81 = -28.00 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:53:40 2011