Locus 9259

Sequence ID dm3.chr3R
Location 5,279,815 – 5,279,867
Length 52
Max. P 0.959989
window12690 window12691

overview

Window 0

Location 5,279,815 – 5,279,867
Length 52
Sequences 11
Columns 52
Reading direction forward
Mean pairwise identity 100.00
Shannon entropy -0.00000
G+C content 0.26923
Mean single sequence MFE -9.30
Consensus MFE -9.30
Energy contribution -9.30
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.93
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.67
SVM RNA-class probability 0.959989
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 5279815 52 + 27905053
AUGGAAACUCAUUCAAAAGUAAAAGUACUAAAUCUUUUAUGAUUUGACUGUG
..(....).((.(((((.(((((((........)))))))..))))).)).. (  -9.30, z-score =  -1.93, R)
>droGri2.scaffold_14906 8545653 52 - 14172833
AUGGAAACUCAUUCAAAAGUAAAAGUACUAAAUCUUUUAUGAUUUGACUGUG
..(....).((.(((((.(((((((........)))))))..))))).)).. (  -9.30, z-score =  -1.93, R)
>droMoj3.scaffold_6540 4688413 52 + 34148556
AUGGAAACUCAUUCAAAAGUAAAAGUACUAAAUCUUUUAUGAUUUGACUGUG
..(....).((.(((((.(((((((........)))))))..))))).)).. (  -9.30, z-score =  -1.93, R)
>droVir3.scaffold_13047 698388 52 + 19223366
AUGGAAACUCAUUCAAAAGUAAAAGUACUAAAUCUUUUAUGAUUUGACUGUG
..(....).((.(((((.(((((((........)))))))..))))).)).. (  -9.30, z-score =  -1.93, R)
>droPer1.super_7 1204457 52 + 4445127
AUGGAAACUCAUUCAAAAGUAAAAGUACUAAAUCUUUUAUGAUUUGACUGUG
..(....).((.(((((.(((((((........)))))))..))))).)).. (  -9.30, z-score =  -1.93, R)
>dp4.chr2 27656185 52 - 30794189
AUGGAAACUCAUUCAAAAGUAAAAGUACUAAAUCUUUUAUGAUUUGACUGUG
..(....).((.(((((.(((((((........)))))))..))))).)).. (  -9.30, z-score =  -1.93, R)
>droAna3.scaffold_13340 18928644 52 - 23697760
AUGGAAACUCAUUCAAAAGUAAAAGUACUAAAUCUUUUAUGAUUUGACUGUG
..(....).((.(((((.(((((((........)))))))..))))).)).. (  -9.30, z-score =  -1.93, R)
>droEre2.scaffold_4770 1422279 52 - 17746568
AUGGAAACUCAUUCAAAAGUAAAAGUACUAAAUCUUUUAUGAUUUGACUGUG
..(....).((.(((((.(((((((........)))))))..))))).)).. (  -9.30, z-score =  -1.93, R)
>droYak2.chr3R 9327537 52 + 28832112
AUGGAAACUCAUUCAAAAGUAAAAGUACUAAAUCUUUUAUGAUUUGACUGUG
..(....).((.(((((.(((((((........)))))))..))))).)).. (  -9.30, z-score =  -1.93, R)
>droSec1.super_0 4504239 52 - 21120651
AUGGAAACUCAUUCAAAAGUAAAAGUACUAAAUCUUUUAUGAUUUGACUGUG
..(....).((.(((((.(((((((........)))))))..))))).)).. (  -9.30, z-score =  -1.93, R)
>droSim1.chr3R 11463388 52 - 27517382
AUGGAAACUCAUUCAAAAGUAAAAGUACUAAAUCUUUUAUGAUUUGACUGUG
..(....).((.(((((.(((((((........)))))))..))))).)).. (  -9.30, z-score =  -1.93, R)
>consensus
AUGGAAACUCAUUCAAAAGUAAAAGUACUAAAUCUUUUAUGAUUUGACUGUG
..(....).((.(((((.(((((((........)))))))..))))).)).. ( -9.30 =  -9.30 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 5,279,815 – 5,279,867
Length 52
Sequences 11
Columns 52
Reading direction reverse
Mean pairwise identity 100.00
Shannon entropy -0.00000
G+C content 0.26923
Mean single sequence MFE -6.90
Consensus MFE -6.90
Energy contribution -6.90
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 0.33
SVM RNA-class probability 0.646390
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 5279815 52 - 27905053
CACAGUCAAAUCAUAAAAGAUUUAGUACUUUUACUUUUGAAUGAGUUUCCAU
..((.(((((...((((((........))))))..))))).))......... (  -6.90, z-score =  -1.02, R)
>droGri2.scaffold_14906 8545653 52 + 14172833
CACAGUCAAAUCAUAAAAGAUUUAGUACUUUUACUUUUGAAUGAGUUUCCAU
..((.(((((...((((((........))))))..))))).))......... (  -6.90, z-score =  -1.02, R)
>droMoj3.scaffold_6540 4688413 52 - 34148556
CACAGUCAAAUCAUAAAAGAUUUAGUACUUUUACUUUUGAAUGAGUUUCCAU
..((.(((((...((((((........))))))..))))).))......... (  -6.90, z-score =  -1.02, R)
>droVir3.scaffold_13047 698388 52 - 19223366
CACAGUCAAAUCAUAAAAGAUUUAGUACUUUUACUUUUGAAUGAGUUUCCAU
..((.(((((...((((((........))))))..))))).))......... (  -6.90, z-score =  -1.02, R)
>droPer1.super_7 1204457 52 - 4445127
CACAGUCAAAUCAUAAAAGAUUUAGUACUUUUACUUUUGAAUGAGUUUCCAU
..((.(((((...((((((........))))))..))))).))......... (  -6.90, z-score =  -1.02, R)
>dp4.chr2 27656185 52 + 30794189
CACAGUCAAAUCAUAAAAGAUUUAGUACUUUUACUUUUGAAUGAGUUUCCAU
..((.(((((...((((((........))))))..))))).))......... (  -6.90, z-score =  -1.02, R)
>droAna3.scaffold_13340 18928644 52 + 23697760
CACAGUCAAAUCAUAAAAGAUUUAGUACUUUUACUUUUGAAUGAGUUUCCAU
..((.(((((...((((((........))))))..))))).))......... (  -6.90, z-score =  -1.02, R)
>droEre2.scaffold_4770 1422279 52 + 17746568
CACAGUCAAAUCAUAAAAGAUUUAGUACUUUUACUUUUGAAUGAGUUUCCAU
..((.(((((...((((((........))))))..))))).))......... (  -6.90, z-score =  -1.02, R)
>droYak2.chr3R 9327537 52 - 28832112
CACAGUCAAAUCAUAAAAGAUUUAGUACUUUUACUUUUGAAUGAGUUUCCAU
..((.(((((...((((((........))))))..))))).))......... (  -6.90, z-score =  -1.02, R)
>droSec1.super_0 4504239 52 + 21120651
CACAGUCAAAUCAUAAAAGAUUUAGUACUUUUACUUUUGAAUGAGUUUCCAU
..((.(((((...((((((........))))))..))))).))......... (  -6.90, z-score =  -1.02, R)
>droSim1.chr3R 11463388 52 + 27517382
CACAGUCAAAUCAUAAAAGAUUUAGUACUUUUACUUUUGAAUGAGUUUCCAU
..((.(((((...((((((........))))))..))))).))......... (  -6.90, z-score =  -1.02, R)
>consensus
CACAGUCAAAUCAUAAAAGAUUUAGUACUUUUACUUUUGAAUGAGUUUCCAU
..((.(((((...((((((........))))))..))))).))......... ( -6.90 =  -6.90 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:00:53 2011