Locus 10903

Sequence ID dm3.chr3R
Location 17,385,382 – 17,385,438
Length 56
Max. P 0.982853
window14981 window14982

overview

Window 1

Location 17,385,382 – 17,385,438
Length 56
Sequences 12
Columns 56
Reading direction forward
Mean pairwise identity 98.54
Shannon entropy 0.03675
G+C content 0.30060
Mean single sequence MFE -9.81
Consensus MFE -9.60
Energy contribution -9.61
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.33
Structure conservation index 0.98
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.12
SVM RNA-class probability 0.982853
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 17385382 56 + 27905053
GUUUGACUAAUUAAACUAAUGAGCGUUCAAAGUUAAUACAUAAAUUAGUCAGCCAG
(.((((((((((.........(((.......)))........)))))))))).).. (  -9.73, z-score =  -2.30, R)
>droSim1.chr3R 23433213 56 - 27517382
GUUUGACUAAUUAAACUAAUGAGCGUUCAAAGUUAAUACAUAAAUUAGUCAGCCAG
(.((((((((((.........(((.......)))........)))))))))).).. (  -9.73, z-score =  -2.30, R)
>droSec1.super_6 254623 56 - 4358794
GUUUGACUAAUUAAACUAAUGAGCGUUCAAAGUUAAUACAUAAAUUAGUCAGCCAG
(.((((((((((.........(((.......)))........)))))))))).).. (  -9.73, z-score =  -2.30, R)
>droYak2.chr3R 6222574 56 + 28832112
GUUUGACUAAUUAAACUAAUGAGCGUUCAAAGUUAAUACAUAAAUUAGUCAGCCAG
(.((((((((((.........(((.......)))........)))))))))).).. (  -9.73, z-score =  -2.30, R)
>droEre2.scaffold_4770 13466454 56 - 17746568
GUUUGACUAAUUAAACUAAUGAGCGUUCAAAGUUAAUACAUAAAUUAGUCAGCCAG
(.((((((((((.........(((.......)))........)))))))))).).. (  -9.73, z-score =  -2.30, R)
>droAna3.scaffold_13340 17722142 56 + 23697760
GUUUGACUAAUUAAACUAAUGAGCGUUCAAAGUUAAUACAUAAAUUAGUCAGCCGG
(.((((((((((.........(((.......)))........)))))))))).).. (  -9.73, z-score =  -1.88, R)
>dp4.chr2 3686235 56 + 30794189
GUUUGACUAAUUAAACUAAUGAGCGUUCAAAGUUAAUACAUAAAUUAGUCAGCCAG
(.((((((((((.........(((.......)))........)))))))))).).. (  -9.73, z-score =  -2.30, R)
>droPer1.super_7 3781216 56 - 4445127
GUUUGACUAAUUAAACUAAUGAGCGUUCAAAGUUAAUACAUAAAUUAGUCAGCCAG
(.((((((((((.........(((.......)))........)))))))))).).. (  -9.73, z-score =  -2.30, R)
>droWil1.scaffold_181130 4179915 56 - 16660200
GUUUGACUAAUUAAACUAAUGAGCGUUCAAAGUUAAUACAUAAAUUAGUCACACAA
((.(((((((((.........(((.......)))........))))))))).)).. ( -10.73, z-score =  -2.90, R)
>droVir3.scaffold_13047 4690367 56 - 19223366
GUUUGACUAAUUAAACUAAUGAGCGUUCAAAGUUAAUACAUAAAUUAGUCAGCCAG
(.((((((((((.........(((.......)))........)))))))))).).. (  -9.73, z-score =  -2.30, R)
>droMoj3.scaffold_6540 16172837 56 - 34148556
GUUUGACUAAUUAAACUAAUGAGCGUUCAAAGUUAAUACAUAAAUUAGUCAGCCAG
(.((((((((((.........(((.......)))........)))))))))).).. (  -9.73, z-score =  -2.30, R)
>droGri2.scaffold_14830 5436621 56 + 6267026
GUUUGACUAAUUAAACUAAUGAGCGUUCAAAGUUAAUACAUAAAUUAGUCAGCCAU
(.((((((((((.........(((.......)))........)))))))))).).. (  -9.73, z-score =  -2.43, R)
>consensus
GUUUGACUAAUUAAACUAAUGAGCGUUCAAAGUUAAUACAUAAAUUAGUCAGCCAG
(..(((((((((.........(((.......)))........)))))))))..).. ( -9.60 =  -9.61 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 17,385,382 – 17,385,438
Length 56
Sequences 12
Columns 56
Reading direction reverse
Mean pairwise identity 98.54
Shannon entropy 0.03675
G+C content 0.30060
Mean single sequence MFE -9.91
Consensus MFE -9.91
Energy contribution -9.91
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.86
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.72
SVM RNA-class probability 0.963561
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 17385382 56 - 27905053
CUGGCUGACUAAUUUAUGUAUUAACUUUGAACGCUCAUUAGUUUAAUUAGUCAAAC
.....(((((((((........((((.(((....)))..)))).)))))))))... (  -9.90, z-score =  -1.86, R)
>droSim1.chr3R 23433213 56 + 27517382
CUGGCUGACUAAUUUAUGUAUUAACUUUGAACGCUCAUUAGUUUAAUUAGUCAAAC
.....(((((((((........((((.(((....)))..)))).)))))))))... (  -9.90, z-score =  -1.86, R)
>droSec1.super_6 254623 56 + 4358794
CUGGCUGACUAAUUUAUGUAUUAACUUUGAACGCUCAUUAGUUUAAUUAGUCAAAC
.....(((((((((........((((.(((....)))..)))).)))))))))... (  -9.90, z-score =  -1.86, R)
>droYak2.chr3R 6222574 56 - 28832112
CUGGCUGACUAAUUUAUGUAUUAACUUUGAACGCUCAUUAGUUUAAUUAGUCAAAC
.....(((((((((........((((.(((....)))..)))).)))))))))... (  -9.90, z-score =  -1.86, R)
>droEre2.scaffold_4770 13466454 56 + 17746568
CUGGCUGACUAAUUUAUGUAUUAACUUUGAACGCUCAUUAGUUUAAUUAGUCAAAC
.....(((((((((........((((.(((....)))..)))).)))))))))... (  -9.90, z-score =  -1.86, R)
>droAna3.scaffold_13340 17722142 56 - 23697760
CCGGCUGACUAAUUUAUGUAUUAACUUUGAACGCUCAUUAGUUUAAUUAGUCAAAC
.....(((((((((........((((.(((....)))..)))).)))))))))... (  -9.90, z-score =  -1.92, R)
>dp4.chr2 3686235 56 - 30794189
CUGGCUGACUAAUUUAUGUAUUAACUUUGAACGCUCAUUAGUUUAAUUAGUCAAAC
.....(((((((((........((((.(((....)))..)))).)))))))))... (  -9.90, z-score =  -1.86, R)
>droPer1.super_7 3781216 56 + 4445127
CUGGCUGACUAAUUUAUGUAUUAACUUUGAACGCUCAUUAGUUUAAUUAGUCAAAC
.....(((((((((........((((.(((....)))..)))).)))))))))... (  -9.90, z-score =  -1.86, R)
>droWil1.scaffold_181130 4179915 56 + 16660200
UUGUGUGACUAAUUUAUGUAUUAACUUUGAACGCUCAUUAGUUUAAUUAGUCAAAC
.....(((((((((........((((.(((....)))..)))).)))))))))... ( -10.00, z-score =  -1.69, R)
>droVir3.scaffold_13047 4690367 56 + 19223366
CUGGCUGACUAAUUUAUGUAUUAACUUUGAACGCUCAUUAGUUUAAUUAGUCAAAC
.....(((((((((........((((.(((....)))..)))).)))))))))... (  -9.90, z-score =  -1.86, R)
>droMoj3.scaffold_6540 16172837 56 + 34148556
CUGGCUGACUAAUUUAUGUAUUAACUUUGAACGCUCAUUAGUUUAAUUAGUCAAAC
.....(((((((((........((((.(((....)))..)))).)))))))))... (  -9.90, z-score =  -1.86, R)
>droGri2.scaffold_14830 5436621 56 - 6267026
AUGGCUGACUAAUUUAUGUAUUAACUUUGAACGCUCAUUAGUUUAAUUAGUCAAAC
.....(((((((((........((((.(((....)))..)))).)))))))))... (  -9.90, z-score =  -1.90, R)
>consensus
CUGGCUGACUAAUUUAUGUAUUAACUUUGAACGCUCAUUAGUUUAAUUAGUCAAAC
.....(((((((((........((((.(((....)))..)))).)))))))))... ( -9.91 =  -9.91 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:32:40 2011