Locus 11590

Sequence ID dm3.chr3R
Location 22,306,065 – 22,306,171
Length 106
Max. P 0.933636
window15922 window15923

overview

Window 2

Location 22,306,065 – 22,306,171
Length 106
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 79.57
Shannon entropy 0.38073
G+C content 0.58066
Mean single sequence MFE -39.40
Consensus MFE -21.63
Energy contribution -24.83
Covariance contribution 3.20
Combinations/Pair 1.17
Mean z-score -2.36
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.38
SVM RNA-class probability 0.933636
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22306065 106 + 27905053
GUGGGGGGAAGAUUGGAGCAGAGAUGGGUUCCUGGGUUCCUGGAGAAACCGGGAUGGCGG--------GGAACUGGGCGCUGCUGCACAAAUUUGCAUAGUUGAACGCACGUCG
(((.(.....(((((.(((((...(.(((((((.(.(((((((.....)))))).).).)--------)))))).)...)))))(((......))).)))))...).))).... ( -38.20, z-score =  -1.98, R)
>droSim1.chr3R 22144871 106 + 27517382
GUGGGGGGCAGAUUGCAGCAGAGAUGGGUUCCUGGGUUCCUGGGGAAACCGGGAAGGCGG--------GGAACUGGGCGCUGCUGCACAAAUUUGCAUAGUUGAACGCACGUCG
(((.(..((((((((((((((...(.(((((((.(.(((((((.....)))))))..).)--------)))))).)...))))))))...)))))).........).))).... ( -47.00, z-score =  -3.87, R)
>droSec1.super_13 1097485 106 + 2104621
GUGGGGGGCAGAUUGCAGCAGAGAUGGGUUCCAGGGUUCCUGGGGAAACCGGGAAGGCGU--------GGAACUGGGCGCUGCUGCACAAAUUUGCAUAGUUGAACGCACGUCG
(((.(..((((((((((((((...(.(((((((.(.(((((((.....)))))))..).)--------)))))).)...))))))))...)))))).........).))).... ( -47.00, z-score =  -4.06, R)
>droYak2.chr3R 4649924 114 - 28832112
GUGGGGGGCAGAUUGCAGCAAAGAUGGGUUCCUUGGUUCCUGGAGAAACCGGGAAGGCGGAAAGGCGGGGAACUGGGCGCUGCUGCACAAAUUUGCAUAGUUGAACGCACGUCG
(((.(..(((((((((((((..(.(.((((((((..(((((((.....))))))).((......)))))))))).).)..)))))))...)))))).........).))).... ( -42.30, z-score =  -1.97, R)
>droEre2.scaffold_4820 4732011 106 - 10470090
GUGGGGGGCAGAUUGCAGCAGAGAUGGGUUCCUUGGUUCCUGGGGAAAACGAGAAGGCGG--------GGAACUGGGCGCUGCUGCACAAAUUUGCAUAGUUGAACGCACGUCG
(((.(..((((((((((((((...(.(((((((((.((.((.(......).)).)).)))--------)))))).)...))))))))...)))))).........).))).... ( -41.30, z-score =  -2.91, R)
>droAna3.scaffold_13340 1350415 86 - 23697760
-----------------AUGGGGGCGGGGC---GGAGGCAGAUUGCAAUUUAGAAGCAAG--------GGAACUGGGCGCUGCAGCUCGAAUUUGCAUAGUUGAACGCAUGUUG
-----------------.....((((..((---(....(((..(((((....((.((.((--------....))..))((....))))....)))))...)))..))).)))). ( -20.60, z-score =   0.64, R)
>consensus
GUGGGGGGCAGAUUGCAGCAGAGAUGGGUUCCUGGGUUCCUGGGGAAACCGGGAAGGCGG________GGAACUGGGCGCUGCUGCACAAAUUUGCAUAGUUGAACGCACGUCG
.......((((((((((((((.(.(.((((((....(((((((.....))))))).............)))))).).).))))))))...)))))).................. (-21.63 = -24.83 +   3.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 22,306,065 – 22,306,171
Length 106
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 79.57
Shannon entropy 0.38073
G+C content 0.58066
Mean single sequence MFE -25.39
Consensus MFE -16.81
Energy contribution -16.95
Covariance contribution 0.14
Combinations/Pair 1.32
Mean z-score -1.70
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.88
SVM RNA-class probability 0.842374
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22306065 106 - 27905053
CGACGUGCGUUCAACUAUGCAAAUUUGUGCAGCAGCGCCCAGUUCC--------CCGCCAUCCCGGUUUCUCCAGGAACCCAGGAACCCAUCUCUGCUCCAAUCUUCCCCCCAC
(((..(((((......)))))...)))((.(((((.(....(((((--------......(((.((.....)).))).....)))))....).))))).))............. ( -22.80, z-score =  -1.16, R)
>droSim1.chr3R 22144871 106 - 27517382
CGACGUGCGUUCAACUAUGCAAAUUUGUGCAGCAGCGCCCAGUUCC--------CCGCCUUCCCGGUUUCCCCAGGAACCCAGGAACCCAUCUCUGCUGCAAUCUGCCCCCCAC
(((..(((((......)))))...)))((((((((.(....(((((--------..(..((((.((.....)).))))..).)))))....).))))))))............. ( -30.30, z-score =  -2.67, R)
>droSec1.super_13 1097485 106 - 2104621
CGACGUGCGUUCAACUAUGCAAAUUUGUGCAGCAGCGCCCAGUUCC--------ACGCCUUCCCGGUUUCCCCAGGAACCCUGGAACCCAUCUCUGCUGCAAUCUGCCCCCCAC
(((..(((((......)))))...)))((((((((.(....(((((--------(.(..((((.((.....)).))))..)))))))....).))))))))............. ( -32.40, z-score =  -3.16, R)
>droYak2.chr3R 4649924 114 + 28832112
CGACGUGCGUUCAACUAUGCAAAUUUGUGCAGCAGCGCCCAGUUCCCCGCCUUUCCGCCUUCCCGGUUUCUCCAGGAACCAAGGAACCCAUCUUUGCUGCAAUCUGCCCCCCAC
(((..(((((......)))))...)))((((((((.(....(((((..((......))......((((((....))))))..)))))....).))))))))............. ( -29.80, z-score =  -1.95, R)
>droEre2.scaffold_4820 4732011 106 + 10470090
CGACGUGCGUUCAACUAUGCAAAUUUGUGCAGCAGCGCCCAGUUCC--------CCGCCUUCUCGUUUUCCCCAGGAACCAAGGAACCCAUCUCUGCUGCAAUCUGCCCCCCAC
(((..(((((......)))))...)))((((((((.(....(((((--------..(..((((.(......).))))..)..)))))....).))))))))............. ( -24.90, z-score =  -1.50, R)
>droAna3.scaffold_13340 1350415 86 + 23697760
CAACAUGCGUUCAACUAUGCAAAUUCGAGCUGCAGCGCCCAGUUCC--------CUUGCUUCUAAAUUGCAAUCUGCCUCC---GCCCCGCCCCCAU-----------------
......(((.........(((.....((((((.......)))))).--------.((((.........))))..)))....---....)))......----------------- ( -12.13, z-score =   0.23, R)
>consensus
CGACGUGCGUUCAACUAUGCAAAUUUGUGCAGCAGCGCCCAGUUCC________CCGCCUUCCCGGUUUCCCCAGGAACCCAGGAACCCAUCUCUGCUGCAAUCUGCCCCCCAC
.....(((((......)))))......((((((((.(....(((((.........((......))..((((...))))....)))))....).))))))))............. (-16.81 = -16.95 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:45:47 2011