Locus 7599

Sequence ID dm3.chr3L
Location 15,777,937 – 15,778,030
Length 93
Max. P 0.845053
window10459 window10460

overview

Window 9

Location 15,777,937 – 15,778,030
Length 93
Sequences 6
Columns 93
Reading direction forward
Mean pairwise identity 78.78
Shannon entropy 0.42172
G+C content 0.49773
Mean single sequence MFE -30.78
Consensus MFE -18.77
Energy contribution -20.47
Covariance contribution 1.70
Combinations/Pair 1.23
Mean z-score -1.67
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.89
SVM RNA-class probability 0.845053
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15777937 93 + 24543557
GAGCCGAAGCCGUUGGAAAAGCAGGAGCAGAAGUCCGCAGAUGGCUGCUCCGGGCAGAAGGAAAAUGCAAUUUCCUUUCUCCAUUUUUCAUAU
.....((((....((((...((.(((((((..(((....)))..)))))))..)).((((((((......)))))))).))))..)))).... ( -32.20, z-score =  -1.93, R)
>droSim1.chr3L 15118647 93 + 22553184
GAGCCGGAGCAGUUGGAAAAGCUAUAGCAGAAGUCCGCAGAUGGCUGCUCCGGGCAGAAGGAAAAUGCAAUUUCCUUUCUCCAUUUUUCAUAU
(((((((((((((((((...((....)).....))))......))))))))))...((((((((......)))))))))))............ ( -31.20, z-score =  -1.95, R)
>droSec1.super_0 7888366 93 + 21120651
GAGCCGGAGCAGUUGGAAAAGCUGGAGCAGAAGUCCGCAGAUGGCUGCUCCGGGCAGAAGGAAAAUGCAAUUUCCUUUCUCCAUUUUUCAUAU
.....((((.....(((((..(((((((((..(((....)))..)))))))))(((.........)))..)))))...))))........... ( -32.50, z-score =  -1.56, R)
>droYak2.chr3L 18330946 93 + 24197627
GAGCAACAGCAGCUGGAGGAGCAGGAGCAGAAGUCCGCAGAUGGCUGCUCCGGGCAGAAGGAAAAUGCAAUUUCCUUUCUCCAUUUUUCAUAU
..((....))...(((((..((.(((((((..(((....)))..)))))))..)).((((((((......))))))))))))).......... ( -34.50, z-score =  -2.33, R)
>droEre2.scaffold_4784 18033065 76 + 25762168
-----------------GGGGCAGGAGCAGCAGUCCGCAGAUGGCUGCUCCGGGCAGAAGGAAAAUGCAAUUUCCUUUCUCCAUUUUUCAUAU
-----------------(((((.((((((((.(((....))).))))))))..)).((((((((......)))))))).)))........... ( -30.50, z-score =  -2.88, R)
>droAna3.scaffold_13337 11920302 91 - 23293914
AGGCGGCGGCCGAGGCAGCAGCUAUGGCAGUGGCUCGGGGCAAAUCGGGU--AGCAAAAAGAAAAUGCAAUUUCCUUUCUCCAUUUUUCAUAU
.(((.((.((((.(((....))).)))).)).))).((((.(((..((((--.(((.........))).))))..)))))))........... ( -23.80, z-score =   0.65, R)
>consensus
GAGCCGCAGCAGUUGGAAAAGCAGGAGCAGAAGUCCGCAGAUGGCUGCUCCGGGCAGAAGGAAAAUGCAAUUUCCUUUCUCCAUUUUUCAUAU
..............((((((...(((((((..(((....)))..))))))).((..((((((((......))))))))..)).)))))).... (-18.77 = -20.47 +   1.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 15,777,937 – 15,778,030
Length 93
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 78.78
Shannon entropy 0.42172
G+C content 0.49773
Mean single sequence MFE -27.14
Consensus MFE -16.68
Energy contribution -16.60
Covariance contribution -0.08
Combinations/Pair 1.35
Mean z-score -1.62
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.79
SVM RNA-class probability 0.818908
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15777937 93 - 24543557
AUAUGAAAAAUGGAGAAAGGAAAUUGCAUUUUCCUUCUGCCCGGAGCAGCCAUCUGCGGACUUCUGCUCCUGCUUUUCCAACGGCUUCGGCUC
..........(((((((((((((......)))))))..((..(((((((...((....))...))))))).)).))))))..(((....))). ( -30.60, z-score =  -2.04, R)
>droSim1.chr3L 15118647 93 - 22553184
AUAUGAAAAAUGGAGAAAGGAAAUUGCAUUUUCCUUCUGCCCGGAGCAGCCAUCUGCGGACUUCUGCUAUAGCUUUUCCAACUGCUCCGGCUC
...........(.((((.(((((......))))))))).)(((((((((......((((....))))....(......)..)))))))))... ( -28.60, z-score =  -1.92, R)
>droSec1.super_0 7888366 93 - 21120651
AUAUGAAAAAUGGAGAAAGGAAAUUGCAUUUUCCUUCUGCCCGGAGCAGCCAUCUGCGGACUUCUGCUCCAGCUUUUCCAACUGCUCCGGCUC
...........(.((((.(((((......))))))))).)(((((((((......((((((....).))).))........)))))))))... ( -29.84, z-score =  -1.96, R)
>droYak2.chr3L 18330946 93 - 24197627
AUAUGAAAAAUGGAGAAAGGAAAUUGCAUUUUCCUUCUGCCCGGAGCAGCCAUCUGCGGACUUCUGCUCCUGCUCCUCCAGCUGCUGUUGCUC
...........((((((.(((((......))))))))).)).(((((((......((((....))))..)))))))..((((....))))... ( -28.60, z-score =  -1.52, R)
>droEre2.scaffold_4784 18033065 76 - 25762168
AUAUGAAAAAUGGAGAAAGGAAAUUGCAUUUUCCUUCUGCCCGGAGCAGCCAUCUGCGGACUGCUGCUCCUGCCCC-----------------
...........((((((.(((((......))))))))).)).((((((((..((....))..))))))))......----------------- ( -26.70, z-score =  -2.91, R)
>droAna3.scaffold_13337 11920302 91 + 23293914
AUAUGAAAAAUGGAGAAAGGAAAUUGCAUUUUCUUUUUGCU--ACCCGAUUUGCCCCGAGCCACUGCCAUAGCUGCUGCCUCGGCCGCCGCCU
..........(((..((((((((......))))))))..))--)........((.(((((.(((.((....)).).)).)))))..))..... ( -18.50, z-score =   0.65, R)
>consensus
AUAUGAAAAAUGGAGAAAGGAAAUUGCAUUUUCCUUCUGCCCGGAGCAGCCAUCUGCGGACUUCUGCUCCAGCUUCUCCAACUGCUCCGGCUC
...........((((((.(((((......))))))))).)).(((((((((......))....)))))))....................... (-16.68 = -16.60 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:29:55 2011