Locus 7527

Sequence ID dm3.chr3L
Location 15,374,728 – 15,374,808
Length 80
Max. P 0.864106
window10368 window10369

overview

Window 8

Location 15,374,728 – 15,374,808
Length 80
Sequences 12
Columns 80
Reading direction forward
Mean pairwise identity 99.20
Shannon entropy 0.01847
G+C content 0.30104
Mean single sequence MFE -10.53
Consensus MFE -10.50
Energy contribution -10.50
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.38
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.97
SVM RNA-class probability 0.864106
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15374728 80 + 24543557
CUCGUCAAGUAUUCCAGCAAUUUUCCAAUUGAAAUCAUUAAACAAUUUGCAUUCCACUUGAAAAUUGCGUUAAAAUAACA
................(((((((((.((.((.(((((..........)).))).)).)))))))))))((((...)))). ( -10.50, z-score =  -1.55, R)
>droSim1.chr3L 14714861 80 + 22553184
CUCGUCAAGUAUUCCAGCAAUUUUCCAAUUGAAAUCAUUAAACAAUUUGCAUUCCACUUGAAAAUUGCGUUAAAAUAACA
................(((((((((.((.((.(((((..........)).))).)).)))))))))))((((...)))). ( -10.50, z-score =  -1.55, R)
>droSec1.super_0 7483997 80 + 21120651
CUCGUCAAGUAUUCCAGCAAUUUUCCAAUUGAAAUCAUUAAACAAUUUGCAUUCCACUUGAAAAUUGCGUUAAAAUAACA
................(((((((((.((.((.(((((..........)).))).)).)))))))))))((((...)))). ( -10.50, z-score =  -1.55, R)
>droYak2.chr3L 17890474 80 + 24197627
CUCGUCAAGUAUUCGAGCAAUUUUCCAAUUGAAAUCAUUAAACAAUUUGCAUUCCACUUGAAAAUUGCGUUAAAAUAACA
.(((.........)))(((((((((.((.((.(((((..........)).))).)).)))))))))))((((...)))). ( -10.80, z-score =  -1.05, R)
>droEre2.scaffold_4784 17633148 80 + 25762168
CUCGUCAAGUAUGCCAGCAAUUUUCCAAUUGAAAUCAUUAAACAAUUUGCAUUCCACUUGAAAAUUGCGUUAAAAUAACA
................(((((((((.((.((.(((((..........)).))).)).)))))))))))((((...)))). ( -10.50, z-score =  -0.86, R)
>droAna3.scaffold_13337 5666531 80 - 23293914
CUCGUCAAGUAUGCCAGCAAUUUUCCAAUUGAAAUCAUUAAACAAUUUGCAUUCCACUUGAAAAUUGCGUUAAAAUAACA
................(((((((((.((.((.(((((..........)).))).)).)))))))))))((((...)))). ( -10.50, z-score =  -0.86, R)
>dp4.chrXR_group6 12936118 80 - 13314419
CUCGUCAAGUAUUCCAGCAAUUUUCCAAUUGAAAUCAUUAAACAAUUUGCAUUCCACUUGAAAAUUGCGUUAAAAUAACA
................(((((((((.((.((.(((((..........)).))).)).)))))))))))((((...)))). ( -10.50, z-score =  -1.55, R)
>droPer1.super_12 1355194 80 - 2414086
CUCGUCAAGUAUUCCAGCAAUUUUCCAAUUGAAAUCAUUAAACAAUUUGCAUUCCACUUGAAAAUUGCGUUAAAAUAACA
................(((((((((.((.((.(((((..........)).))).)).)))))))))))((((...)))). ( -10.50, z-score =  -1.55, R)
>droWil1.scaffold_180955 2286297 80 - 2875958
UUCGUCAAGUAUUCCAGCAAUUUUCCAAUUGAAAUCAUUAAACAAUUUGCAUUCCACUUGAAAAUUGCGUUAAAAUAACA
................(((((((((.((.((.(((((..........)).))).)).)))))))))))((((...)))). ( -10.50, z-score =  -1.48, R)
>droVir3.scaffold_13049 20155851 80 + 25233164
CUCGUCAAGUAUUCCAGCAAUUUUCCAAUUGAAAUCAUUAAACAAUUUGCAUUCCACUUGAAAAUUGCGUUAAAAUAACA
................(((((((((.((.((.(((((..........)).))).)).)))))))))))((((...)))). ( -10.50, z-score =  -1.55, R)
>droMoj3.scaffold_6680 7856818 80 + 24764193
CUCGUCAAGUAUUCCAGCAAUUUUCCAAUUGAAAUCAUUAAACAAUUUGCAUUCCACUUGAAAAUUGCGUUAAAAUAACA
................(((((((((.((.((.(((((..........)).))).)).)))))))))))((((...)))). ( -10.50, z-score =  -1.55, R)
>droGri2.scaffold_15110 4558638 80 - 24565398
CUCGUCAAGUAUUCCAGCAAUUUUCCAAUUGAAAUCAUUAAACAAUUUGCAUUCCACUUGAAAAUUGCGUUAAAAUAACA
................(((((((((.((.((.(((((..........)).))).)).)))))))))))((((...)))). ( -10.50, z-score =  -1.55, R)
>consensus
CUCGUCAAGUAUUCCAGCAAUUUUCCAAUUGAAAUCAUUAAACAAUUUGCAUUCCACUUGAAAAUUGCGUUAAAAUAACA
................(((((((((.((.((.(((((..........)).))).)).)))))))))))((((...)))). (-10.50 = -10.50 +   0.00)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 9

Location 15,374,728 – 15,374,808
Length 80
Sequences 12
Columns 80
Reading direction reverse
Mean pairwise identity 99.20
Shannon entropy 0.01847
G+C content 0.30104
Mean single sequence MFE -15.85
Consensus MFE -15.38
Energy contribution -15.54
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.47
Structure conservation index 0.97
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.74
SVM RNA-class probability 0.802887
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15374728 80 - 24543557
UGUUAUUUUAACGCAAUUUUCAAGUGGAAUGCAAAUUGUUUAAUGAUUUCAAUUGGAAAAUUGCUGGAAUACUUGACGAG
.((((.(((...(((((((((...((((((.((..........))))))))....)))))))))..)))....))))... ( -16.00, z-score =  -1.60, R)
>droSim1.chr3L 14714861 80 - 22553184
UGUUAUUUUAACGCAAUUUUCAAGUGGAAUGCAAAUUGUUUAAUGAUUUCAAUUGGAAAAUUGCUGGAAUACUUGACGAG
.((((.(((...(((((((((...((((((.((..........))))))))....)))))))))..)))....))))... ( -16.00, z-score =  -1.60, R)
>droSec1.super_0 7483997 80 - 21120651
UGUUAUUUUAACGCAAUUUUCAAGUGGAAUGCAAAUUGUUUAAUGAUUUCAAUUGGAAAAUUGCUGGAAUACUUGACGAG
.((((.(((...(((((((((...((((((.((..........))))))))....)))))))))..)))....))))... ( -16.00, z-score =  -1.60, R)
>droYak2.chr3L 17890474 80 - 24197627
UGUUAUUUUAACGCAAUUUUCAAGUGGAAUGCAAAUUGUUUAAUGAUUUCAAUUGGAAAAUUGCUCGAAUACUUGACGAG
.((((.((..(.(((((((((...((((((.((..........))))))))....))))))))))..))....))))... ( -15.40, z-score =  -1.23, R)
>droEre2.scaffold_4784 17633148 80 - 25762168
UGUUAUUUUAACGCAAUUUUCAAGUGGAAUGCAAAUUGUUUAAUGAUUUCAAUUGGAAAAUUGCUGGCAUACUUGACGAG
.((((......((((((((((...((((((.((..........))))))))....))))))))).).......))))... ( -15.42, z-score =  -1.00, R)
>droAna3.scaffold_13337 5666531 80 + 23293914
UGUUAUUUUAACGCAAUUUUCAAGUGGAAUGCAAAUUGUUUAAUGAUUUCAAUUGGAAAAUUGCUGGCAUACUUGACGAG
.((((......((((((((((...((((((.((..........))))))))....))))))))).).......))))... ( -15.42, z-score =  -1.00, R)
>dp4.chrXR_group6 12936118 80 + 13314419
UGUUAUUUUAACGCAAUUUUCAAGUGGAAUGCAAAUUGUUUAAUGAUUUCAAUUGGAAAAUUGCUGGAAUACUUGACGAG
.((((.(((...(((((((((...((((((.((..........))))))))....)))))))))..)))....))))... ( -16.00, z-score =  -1.60, R)
>droPer1.super_12 1355194 80 + 2414086
UGUUAUUUUAACGCAAUUUUCAAGUGGAAUGCAAAUUGUUUAAUGAUUUCAAUUGGAAAAUUGCUGGAAUACUUGACGAG
.((((.(((...(((((((((...((((((.((..........))))))))....)))))))))..)))....))))... ( -16.00, z-score =  -1.60, R)
>droWil1.scaffold_180955 2286297 80 + 2875958
UGUUAUUUUAACGCAAUUUUCAAGUGGAAUGCAAAUUGUUUAAUGAUUUCAAUUGGAAAAUUGCUGGAAUACUUGACGAA
.((((.(((...(((((((((...((((((.((..........))))))))....)))))))))..)))....))))... ( -16.00, z-score =  -1.62, R)
>droVir3.scaffold_13049 20155851 80 - 25233164
UGUUAUUUUAACGCAAUUUUCAAGUGGAAUGCAAAUUGUUUAAUGAUUUCAAUUGGAAAAUUGCUGGAAUACUUGACGAG
.((((.(((...(((((((((...((((((.((..........))))))))....)))))))))..)))....))))... ( -16.00, z-score =  -1.60, R)
>droMoj3.scaffold_6680 7856818 80 - 24764193
UGUUAUUUUAACGCAAUUUUCAAGUGGAAUGCAAAUUGUUUAAUGAUUUCAAUUGGAAAAUUGCUGGAAUACUUGACGAG
.((((.(((...(((((((((...((((((.((..........))))))))....)))))))))..)))....))))... ( -16.00, z-score =  -1.60, R)
>droGri2.scaffold_15110 4558638 80 + 24565398
UGUUAUUUUAACGCAAUUUUCAAGUGGAAUGCAAAUUGUUUAAUGAUUUCAAUUGGAAAAUUGCUGGAAUACUUGACGAG
.((((.(((...(((((((((...((((((.((..........))))))))....)))))))))..)))....))))... ( -16.00, z-score =  -1.60, R)
>consensus
UGUUAUUUUAACGCAAUUUUCAAGUGGAAUGCAAAUUGUUUAAUGAUUUCAAUUGGAAAAUUGCUGGAAUACUUGACGAG
.((((.(((...(((((((((...((((((.((..........))))))))....)))))))))..)))....))))... (-15.38 = -15.54 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:28:39 2011