Locus 10605

Sequence ID dm3.chr3R
Location 15,010,911 – 15,011,034
Length 123
Max. P 0.820042
window14579 window14580

overview

Window 9

Location 15,010,911 – 15,011,006
Length 95
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 88.23
Shannon entropy 0.19761
G+C content 0.48755
Mean single sequence MFE -29.68
Consensus MFE -23.96
Energy contribution -24.12
Covariance contribution 0.16
Combinations/Pair 1.21
Mean z-score -1.49
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.06
SVM RNA-class probability 0.521818
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 15010911 95 - 27905053
UCAAACCCGGCCGACUUGCGAAUGUGUGUGUGCGUAUGUGUCGGCUGGCAGUUGAUGUAUGCGAAAACUGCACUCAAUCAGUGCCAAGCAAACAA
((((..(((((((((.((((.((......)).))))...)))))))))...))))(((.(((.......(((((.....)))))...))).))). ( -33.20, z-score =  -1.80, R)
>droSim1.chr3R 21050658 87 + 27517382
UCAAAGCUGGCCGACUUGCAAA--------UGUGUGUGUGUCGGCUGGCAGUUGAUGUAUGCGAAAACUGCACUCAAUCAGUGCCAAGCAAACAA
((((.((..((((((.((((..--------....)))).))))))..))..))))(((.(((.......(((((.....)))))...))).))). ( -32.10, z-score =  -2.55, R)
>droSec1.super_25 77723 95 + 827797
UCAAAGCUGGCCGACUUGCGAAUGUGUGUGUGUGUGUGUGUCGGCUGACAGUUGAUGUAUGCGAAAACUGCACUCAAUCAGUGCCAAGCAAACAA
.....((((((..(((...((.((.((((((.((((((..(((((.....)))))..))))))...)).)))).)).)))))))).)))...... ( -28.50, z-score =  -0.45, R)
>droYak2.chr3R 3697297 87 - 28832112
UCAAAGCCGGUCGACUUGGGAA--------UGUGUGUGUGUCGGCUGCCAGUUGAUGUAUGCGAAAACUGCACUCAAUCAGUGUUAAGCAAACCA
........(((...((((((..--------..((((((..(((((.....)))))..))))))....))(((((.....)))))))))...))). ( -19.70, z-score =   1.05, R)
>droEre2.scaffold_4770 11128599 87 + 17746568
UCAAAGCUCGCCGACAUGCGAA--------UGUGUGUGUGUCGGCUGGCAGUUGAUGUAUGCAAAAACUGCACUCAAUCAGUGCCAAGCAAACAA
.....(((.(((((((((((..--------....)))))))))))(((((.((((((..((((.....))))..).)))))))))))))...... ( -34.90, z-score =  -3.71, R)
>consensus
UCAAAGCUGGCCGACUUGCGAA________UGUGUGUGUGUCGGCUGGCAGUUGAUGUAUGCGAAAACUGCACUCAAUCAGUGCCAAGCAAACAA
((((.((((((((((.((((............))))...))))))))))..))))(((.(((.......(((((.....)))))...))).))). (-23.96 = -24.12 +   0.16)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,010,941 – 15,011,034
Length 93
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 86.64
Shannon entropy 0.22274
G+C content 0.47610
Mean single sequence MFE -27.44
Consensus MFE -21.00
Energy contribution -21.16
Covariance contribution 0.16
Combinations/Pair 1.21
Mean z-score -1.97
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.80
SVM RNA-class probability 0.820042
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 15010941 93 - 27905053
CCAUAAUUUACUCUUCUUUUGGCCAAAGUCAAACCCGGCCGACUUGCGAAUGUGUGUGUGCGUAUGUGUCGGCUGGCAGUUGAUGUAUGCGAA
.....................((....(((((..(((((((((.((((.((......)).))))...)))))))))...)))))....))... ( -28.10, z-score =  -1.51, R)
>droSim1.chr3R 21050688 85 + 27517382
CCAUAAUCUACUCUUCUUUUGGCCAAAGUCAAAGCUGGCCGACUUGCAAA--------UGUGUGUGUGUCGGCUGGCAGUUGAUGUAUGCGAA
.(((((((.(((.....((((((....))))))((..((((((.((((..--------....)))).))))))..))))).))).)))).... ( -29.40, z-score =  -3.04, R)
>droSec1.super_25 77753 93 + 827797
CCAUAAUCUACUCUUCUUUUGGCCAAAGUCAAAGCUGGCCGACUUGCGAAUGUGUGUGUGUGUGUGUGUCGGCUGACAGUUGAUGUAUGCGAA
.(((((((.(((.....((((((....))))))(..(((((((.((((.(..(....)..).)))).)))))))..)))).))).)))).... ( -23.50, z-score =  -0.43, R)
>droYak2.chr3R 3697327 85 - 28832112
CCAUAAUCAACCUUUCUUCUGGCCAAAGUCAAAGCCGGUCGACUUGGGAA--------UGUGUGUGUGUCGGCUGCCAGUUGAUGUAUGCGAA
......((..(((.((..(((((..........)))))..))...)))..--------...(((((..(((((.....)))))..))))))). ( -22.00, z-score =  -0.27, R)
>droEre2.scaffold_4770 11128629 85 + 17746568
CCAUAAUCAACUUUUCUUUUGGCCAAAGUCAAAGCUCGCCGACAUGCGAA--------UGUGUGUGUGUCGGCUGGCAGUUGAUGUAUGCAAA
.(((((((((((.....((((((....))))))(((.(((((((((((..--------....))))))))))).)))))))))).)))).... ( -34.20, z-score =  -4.61, R)
>consensus
CCAUAAUCUACUCUUCUUUUGGCCAAAGUCAAAGCUGGCCGACUUGCGAA________UGUGUGUGUGUCGGCUGGCAGUUGAUGUAUGCGAA
.(((((((.((......((((((....))))))((((((((((.((((............))))...)))))))))).)).))).)))).... (-21.00 = -21.16 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:27:04 2011