Locus 10795

Sequence ID dm3.chr3R
Location 16,547,555 – 16,547,606
Length 51
Max. P 0.892982
window14833 window14834

overview

Window 3

Location 16,547,555 – 16,547,606
Length 51
Sequences 4
Columns 51
Reading direction forward
Mean pairwise identity 93.14
Shannon entropy 0.11135
G+C content 0.36941
Mean single sequence MFE -9.35
Consensus MFE -7.72
Energy contribution -8.22
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.23
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.99
SVM RNA-class probability 0.868355
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16547555 51 + 27905053
UAUUUUUAUUUUCGAACAUUCGCUCGAGCAUACAUUCCAAAUUAGUCUGCC
...........((((........))))(((.((...........)).))). (  -4.50, z-score =  -0.59, R)
>droSim1.chr3R 22600780 50 - 27517382
UAUUUUUAUUUUCGAGCAUUCGCUCGAGCAUACAUUCCAAAUUAGUCUGC-
...........((((((....))))))(((.((...........)).)))- ( -10.20, z-score =  -2.72, R)
>droSec1.super_27 610396 51 - 799419
UAUUUUUAUUUUCGAGCAUUCGCUCGAGCAUACAUUCCAAAUUAGUCUGCC
...........((((((....))))))(((.((...........)).))). ( -11.00, z-score =  -3.34, R)
>droYak2.chr3R 5334155 51 + 28832112
UUUUUUUGGUUUAGAGCAUUCGCUCGAGCAUACAUUCCAAAUUAGUGUGCC
.............((((....))))..((((((...........)))))). ( -11.70, z-score =  -2.27, R)
>consensus
UAUUUUUAUUUUCGAGCAUUCGCUCGAGCAUACAUUCCAAAUUAGUCUGCC
...........((((((....))))))(((.((...........)).))). ( -7.72 =  -8.22 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 16,547,555 – 16,547,606
Length 51
Sequences 4
Columns 51
Reading direction reverse
Mean pairwise identity 93.14
Shannon entropy 0.11135
G+C content 0.36941
Mean single sequence MFE -9.80
Consensus MFE -9.34
Energy contribution -9.40
Covariance contribution 0.06
Combinations/Pair 1.09
Mean z-score -1.60
Structure conservation index 0.95
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.11
SVM RNA-class probability 0.892982
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16547555 51 - 27905053
GGCAGACUAAUUUGGAAUGUAUGCUCGAGCGAAUGUUCGAAAAUAAAAAUA
.(((.((...........)).)))((((((....))))))........... (  -8.80, z-score =  -1.14, R)
>droSim1.chr3R 22600780 50 + 27517382
-GCAGACUAAUUUGGAAUGUAUGCUCGAGCGAAUGCUCGAAAAUAAAAAUA
-(((.((...........)).)))((((((....))))))........... ( -11.20, z-score =  -2.28, R)
>droSec1.super_27 610396 51 + 799419
GGCAGACUAAUUUGGAAUGUAUGCUCGAGCGAAUGCUCGAAAAUAAAAAUA
.(((.((...........)).)))((((((....))))))........... ( -11.20, z-score =  -2.11, R)
>droYak2.chr3R 5334155 51 - 28832112
GGCACACUAAUUUGGAAUGUAUGCUCGAGCGAAUGCUCUAAACCAAAAAAA
((((.((...........)).)))).((((....))))............. (  -8.00, z-score =  -0.87, R)
>consensus
GGCAGACUAAUUUGGAAUGUAUGCUCGAGCGAAUGCUCGAAAAUAAAAAUA
.(((.((...........)).)))((((((....))))))........... ( -9.34 =  -9.40 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:30:35 2011