Locus 10087

Sequence ID dm3.chr3R
Location 11,221,280 – 11,221,372
Length 92
Max. P 0.881892
window13869 window13870

overview

Window 9

Location 11,221,280 – 11,221,372
Length 92
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 82.47
Shannon entropy 0.32353
G+C content 0.42406
Mean single sequence MFE -23.38
Consensus MFE -14.31
Energy contribution -14.20
Covariance contribution -0.11
Combinations/Pair 1.25
Mean z-score -2.25
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.05
SVM RNA-class probability 0.881892
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 11221280 92 + 27905053
AUACCAAAGCUUGUGCAAAUGCAAGUAAUGAACCGAAAUCUGAACAUAA----UUCAGAGAGCCCAAGAAGCCCGAAA--UCGGGGCUAAAAUAGGGC
....((..((((((......))))))..))........((((((.....----))))))..((((....(((((....--...)))))......)))) ( -24.90, z-score =  -2.72, R)
>droSim1.chr3R 17266466 92 - 27517382
AUACCAAAGCUUGUGCAAAUGCAAGUAAUGUACCGAAAUCUGAACAUAA----UUCAGAGAGCCCAAGAAGCCCGAUA--UCGGGGCUAAAAUAGGGC
........((((((......))))))............((((((.....----))))))..((((....(((((....--...)))))......)))) ( -24.70, z-score =  -2.39, R)
>droSec1.super_0 10393897 92 - 21120651
AUACCAAAGCUUGUGCAAAUGCAAGUAAUGUACCGAAAUCUGAACAUAA----UUCAGAGAGCCCAAGAAGCCCGAUA--UCGGGGCUGAAAUAGGGC
........((((((......))))))............((((((.....----))))))..((((....(((((....--...)))))......)))) ( -25.80, z-score =  -2.52, R)
>droYak2.chr3R 13621569 96 - 28832112
AUACAAAAGCUUGUGCAAAUGCAAGAAAUGAACCGAAAUCUGAACAUAAGUAAUUCAGAGAACCCAAGAAGUCCGAAA--UCGGGGUUCGAAUAGGGC
...((....(((((......)))))...))........((((((.........))))))...(((..(((.((((...--.)))).))).....))). ( -20.80, z-score =  -1.67, R)
>droEre2.scaffold_4770 10747383 96 + 17746568
AUACAAAAGCUUGUGCAAAUGCAAGAAAUGAACCGAUAUCUGAACAUAAGUAAUUCAGAGAACCCAAGAAGUCCGAAA--GCGGGGUUCAAAUAGGGC
...((....(((((......)))))...))..((....((((((.........))))))((((((.....((......--)).)))))).....)).. ( -20.40, z-score =  -1.60, R)
>droAna3.scaffold_13340 12805764 96 + 23697760
AUACGAAUGCUUAUGCAAUUGCCACUAAAGAACAAAACUCUGAAUAUGC--AAUUCAGAAACGCCCAGAGCUCCCAAAACUUUGGAGCUGAAUAGGGC
...(((.(((....))).))).................(((((((....--.)))))))...((((..((((((.........)))))).....)))) ( -23.70, z-score =  -2.61, R)
>consensus
AUACCAAAGCUUGUGCAAAUGCAAGUAAUGAACCGAAAUCUGAACAUAA____UUCAGAGAGCCCAAGAAGCCCGAAA__UCGGGGCUAAAAUAGGGC
........((((((......))))))............((((((.........))))))...(((....(((((.........)))))......))). (-14.31 = -14.20 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 11,221,280 – 11,221,372
Length 92
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 82.47
Shannon entropy 0.32353
G+C content 0.42406
Mean single sequence MFE -23.80
Consensus MFE -14.61
Energy contribution -13.50
Covariance contribution -1.11
Combinations/Pair 1.32
Mean z-score -1.78
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.13
SVM RNA-class probability 0.555505
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 11221280 92 - 27905053
GCCCUAUUUUAGCCCCGA--UUUCGGGCUUCUUGGGCUCUCUGAA----UUAUGUUCAGAUUUCGGUUCAUUACUUGCAUUUGCACAAGCUUUGGUAU
((((......(((((.(.--...))))))....))))..((((((----(...)))))))...............(((....((....))....))). ( -23.50, z-score =  -1.45, R)
>droSim1.chr3R 17266466 92 + 27517382
GCCCUAUUUUAGCCCCGA--UAUCGGGCUUCUUGGGCUCUCUGAA----UUAUGUUCAGAUUUCGGUACAUUACUUGCAUUUGCACAAGCUUUGGUAU
((((......(((((.(.--...))))))....))))..((((((----(...))))))).....((((....((((........)))).....)))) ( -24.50, z-score =  -1.72, R)
>droSec1.super_0 10393897 92 + 21120651
GCCCUAUUUCAGCCCCGA--UAUCGGGCUUCUUGGGCUCUCUGAA----UUAUGUUCAGAUUUCGGUACAUUACUUGCAUUUGCACAAGCUUUGGUAU
((((......(((((.(.--...))))))....))))..((((((----(...))))))).....((((....((((........)))).....)))) ( -23.80, z-score =  -1.40, R)
>droYak2.chr3R 13621569 96 + 28832112
GCCCUAUUCGAACCCCGA--UUUCGGACUUCUUGGGUUCUCUGAAUUACUUAUGUUCAGAUUUCGGUUCAUUUCUUGCAUUUGCACAAGCUUUUGUAU
.........((((((((.--...))).......(((...(((((((.......))))))).))))))))......((((...((....))...)))). ( -21.30, z-score =  -1.93, R)
>droEre2.scaffold_4770 10747383 96 - 17746568
GCCCUAUUUGAACCCCGC--UUUCGGACUUCUUGGGUUCUCUGAAUUACUUAUGUUCAGAUAUCGGUUCAUUUCUUGCAUUUGCACAAGCUUUUGUAU
........((((((....--....(((((.....)))))(((((((.......)))))))....)))))).....((((...((....))...)))). ( -21.60, z-score =  -2.12, R)
>droAna3.scaffold_13340 12805764 96 - 23697760
GCCCUAUUCAGCUCCAAAGUUUUGGGAGCUCUGGGCGUUUCUGAAUU--GCAUAUUCAGAGUUUUGUUCUUUAGUGGCAAUUGCAUAAGCAUUCGUAU
((((.....((((((.........))))))..))))((((.((((((--((.((((.((((.......)))))))))))))).)).))))........ ( -28.10, z-score =  -2.07, R)
>consensus
GCCCUAUUUGAGCCCCGA__UUUCGGACUUCUUGGGCUCUCUGAA____UUAUGUUCAGAUUUCGGUUCAUUACUUGCAUUUGCACAAGCUUUGGUAU
((............((((......(((((.....)))))((((((.........))))))..))))..........((....))....))........ (-14.61 = -13.50 +  -1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:17:14 2011