Locus 2435

Sequence ID dm3.chr2L
Location 19,026,007 – 19,026,107
Length 100
Max. P 0.881716
window3350 window3351

overview

Window 0

Location 19,026,007 – 19,026,107
Length 100
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 97.00
Shannon entropy 0.05303
G+C content 0.44000
Mean single sequence MFE -24.33
Consensus MFE -23.36
Energy contribution -23.16
Covariance contribution -0.20
Combinations/Pair 1.07
Mean z-score -1.65
Structure conservation index 0.96
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.05
SVM RNA-class probability 0.881716
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 19026007 100 + 23011544
GAGUUUGCCACAUAAUGUAACCAGCUCUUGAUAUAUGAAUACCGACAAUGCGGCACAGCCAUGUGAUGCCACUCAUCGUCUGUAAAAAGAGCUAAGCUCC
((((((...((.....))....(((((((.(((.((((...(((......)))((((....))))..........)))).)))...))))))))))))). ( -23.20, z-score =  -1.17, R)
>droEre2.scaffold_4845 17344545 100 - 22589142
GAGUUUGCCACAUAAUGUAACCAGCUCUUGAUAUAUGAGUAUCCACAAUGUGGCACAACCAUGUGAUGCCACUCAUCGUCUGUAAAAAGAGCUAAGCUCC
((((((...((.....))....(((((((.(((.((((((....))...((((((((......)).))))))...)))).)))...))))))))))))). ( -26.00, z-score =  -2.20, R)
>droYak2.chr2R 5541750 100 + 21139217
GAGUUUGCCACAUAAUGUUACCGGCUCUUGAUAUAUGAAUACCCACAAUGUGGCACAACCAUGUGAUGCCACUCAUCGUCUGUAAAAAGAGCUAAGCUCC
((((((...((.....))....(((((((..((((.((...........((((((((......)).))))))......))))))..))))))))))))). ( -23.63, z-score =  -1.46, R)
>droSec1.super_7 2656030 100 + 3727775
GAGUUUGCCACAUAAUGUAACCAGCUCUUGAUAUAUGAAUACCCACAAUGUGGCACAGCCAUGUGAUGCCACUCAUCGUCUGUAAAAAGAGCUAAGCUCC
((((((...((.....))....(((((((..((((.((.........(((((((...)))))))((((.....)))).))))))..))))))))))))). ( -24.40, z-score =  -1.71, R)
>droSim1.chr2L 18720366 100 + 22036055
GAGUUUGCCACAUAAUGUAACCAGCUCUUGAUAUAUGAAUACCCACAAUGUGGCACAGCCAUGUGAUGCCACUCAUCGUCUGUAAAAAGAGCUAAGCUCC
((((((...((.....))....(((((((..((((.((.........(((((((...)))))))((((.....)))).))))))..))))))))))))). ( -24.40, z-score =  -1.71, R)
>consensus
GAGUUUGCCACAUAAUGUAACCAGCUCUUGAUAUAUGAAUACCCACAAUGUGGCACAGCCAUGUGAUGCCACUCAUCGUCUGUAAAAAGAGCUAAGCUCC
((((((...((.....))....(((((((.(((.((((...........((((((..((...))..))))))...)))).)))...))))))))))))). (-23.36 = -23.16 +  -0.20)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,026,007 – 19,026,107
Length 100
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 97.00
Shannon entropy 0.05303
G+C content 0.44000
Mean single sequence MFE -28.36
Consensus MFE -27.00
Energy contribution -27.28
Covariance contribution 0.28
Combinations/Pair 1.06
Mean z-score -1.18
Structure conservation index 0.95
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.17
SVM RNA-class probability 0.574744
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 19026007 100 - 23011544
GGAGCUUAGCUCUUUUUACAGACGAUGAGUGGCAUCACAUGGCUGUGCCGCAUUGUCGGUAUUCAUAUAUCAAGAGCUGGUUACAUUAUGUGGCAAACUC
.(((..((((((((......((((((..((((((.((......))))))))))))))(((((....)))))))))))))(((((.....)))))...))) ( -32.20, z-score =  -2.27, R)
>droEre2.scaffold_4845 17344545 100 + 22589142
GGAGCUUAGCUCUUUUUACAGACGAUGAGUGGCAUCACAUGGUUGUGCCACAUUGUGGAUACUCAUAUAUCAAGAGCUGGUUACAUUAUGUGGCAAACUC
.(((..((((((((.......(((((..(((((((.((...)).)))))))))))).((((......))))))))))))(((((.....)))))...))) ( -28.50, z-score =  -1.41, R)
>droYak2.chr2R 5541750 100 - 21139217
GGAGCUUAGCUCUUUUUACAGACGAUGAGUGGCAUCACAUGGUUGUGCCACAUUGUGGGUAUUCAUAUAUCAAGAGCCGGUAACAUUAUGUGGCAAACUC
(..(((..((((((.......(((((..(((((((.((...)).)))))))))))).(((((....))))))))))).)))..)................ ( -23.90, z-score =   0.09, R)
>droSec1.super_7 2656030 100 - 3727775
GGAGCUUAGCUCUUUUUACAGACGAUGAGUGGCAUCACAUGGCUGUGCCACAUUGUGGGUAUUCAUAUAUCAAGAGCUGGUUACAUUAUGUGGCAAACUC
.(((..((((((((.......(((((..((((((.((......))))))))))))).(((((....)))))))))))))(((((.....)))))...))) ( -28.60, z-score =  -1.16, R)
>droSim1.chr2L 18720366 100 - 22036055
GGAGCUUAGCUCUUUUUACAGACGAUGAGUGGCAUCACAUGGCUGUGCCACAUUGUGGGUAUUCAUAUAUCAAGAGCUGGUUACAUUAUGUGGCAAACUC
.(((..((((((((.......(((((..((((((.((......))))))))))))).(((((....)))))))))))))(((((.....)))))...))) ( -28.60, z-score =  -1.16, R)
>consensus
GGAGCUUAGCUCUUUUUACAGACGAUGAGUGGCAUCACAUGGCUGUGCCACAUUGUGGGUAUUCAUAUAUCAAGAGCUGGUUACAUUAUGUGGCAAACUC
.(((..((((((((.......(((((..((((((.((......))))))))))))).(((((....)))))))))))))(((((.....)))))...))) (-27.00 = -27.28 +   0.28)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:51:10 2011