Locus 15029

Sequence ID dm3.chrX
Location 17,046,244 – 17,046,374
Length 130
Max. P 0.645930
window20711 window20712

overview

Window 1

Location 17,046,244 – 17,046,340
Length 96
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 65.79
Shannon entropy 0.57372
G+C content 0.60930
Mean single sequence MFE -39.02
Consensus MFE -17.05
Energy contribution -19.08
Covariance contribution 2.03
Combinations/Pair 1.30
Mean z-score -1.34
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.33
SVM RNA-class probability 0.645930
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17046244 96 - 22422827
------------------CUGCCAAAAAGUCAAAUUUGGUGGGUAUGCCUUCCAAAGAGCACGCCUACCAGCGGCGCCUGGUGAGGAAUACCUCCACCCUGGAGGCCAUCGUCA-----
------------------..((((....(((....((((((((..(((((.....)).)))..)))))))).)))...))))((.((...(((((.....)))))...)).)).----- ( -35.80, z-score =  -2.02, R)
>droSim1.chrX 13230814 96 - 17042790
------------------CUGCCAAAAAAUCAAAUUUAGCGGGUGUGCGUCCCAAAGAGCACGCCUACCAACGGCGCCUGGUGAGGAAUCCCUCUACCCUGGAGGCCAUCGUCA-----
------------------..((.(((........))).))((((((((.((.....))))))))))......(((.((.(((((((....)))).)))..))..))).......----- ( -31.50, z-score =  -1.40, R)
>droSec1.super_17 887816 96 - 1527944
------------------CUGCCAAAAAAUCAAAUUUGGUGGGUGUGCGUCCCAAAGAGCACGCCUACCAACGGCGCCUGGUGAGGAAUCCCUCUACACUGGAGGCCAUCGUCA-----
------------------.................(((((((((((((.((.....))))))))))))))).(((.((..((((((....)))).))...))..))).......----- ( -37.70, z-score =  -2.94, R)
>droYak2.chrX 15656146 96 - 21770863
------------------CCGCCAAGAGAUGCGAUCUGGUGGGUGUGCGUCCCAAGGAGCAGGCCUAUGAGCGGCACCUGGUGCGGAAGACCUCGUCCGUGGAGGCCAUCGUCA-----
------------------((((((.((.......))))))))...(((.(((...))))))(((((....((((.((..(((.(....))))..))))))..))))).......----- ( -38.00, z-score =  -0.26, R)
>droEre2.scaffold_4690 7393051 96 - 18748788
------------------CCGCCAAAAGGUGCGAUUUGGUGGGUGUGCGUCCCAAGGAGCAGCCCCACCAGCGGCGCCUGCUGAGGAUUGCCUCAUCCCUGGAGGCCAUUGUCA-----
------------------..((....((((((...((((((((..(((.(((...))))))..))))))))..)))))))).((.(((.(((((.......))))).))).)).----- ( -42.90, z-score =  -1.73, R)
>droAna3.scaffold_13248 1423399 119 + 4840945
GCUCCUCGCCGCGCGGACCCGAGGAAGAGACGUACUCGAACCACAGACAAGCCCGGGAGCACCACUCGCCACGGCCCAAGGGUCGGGUGCGCUCCAAGCUGCCGGCCAAGGAGGUGGUC
.(((((.((((.((((...((((...........))))..)).......(((...(((((......((((.(((((....))))))))).)))))..)))))))))..)))))...... ( -48.20, z-score =   0.28, R)
>consensus
__________________CCGCCAAAAAAUCAAAUUUGGUGGGUGUGCGUCCCAAAGAGCACGCCUACCAACGGCGCCUGGUGAGGAAUCCCUCCACCCUGGAGGCCAUCGUCA_____
...................................(((((((((.(((..........))).))))))))).(((..((((.(.(((.....))).).))))..)))............ (-17.05 = -19.08 +   2.03)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,046,278 – 17,046,374
Length 96
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 85.42
Shannon entropy 0.24921
G+C content 0.60417
Mean single sequence MFE -37.88
Consensus MFE -26.75
Energy contribution -27.19
Covariance contribution 0.44
Combinations/Pair 1.24
Mean z-score -1.71
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.05
SVM RNA-class probability 0.521210
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17046278 96 - 22422827
GCCGCCACCUGGGACCACAAUGGACGGAAAGUGCCUGCCAAAAAGUCAAAUUUGGUGGGUAUGCCUUCCAAAGAGCACGCCUACCAGCGGCGCCUG
(((((....((((.......((((.((...(((((..(((((........)))))..))))).)).)))).........))))...)))))..... ( -36.89, z-score =  -2.07, R)
>droSim1.chrX 13230848 96 - 17042790
GCCGCCAACUGGGACCAGAAUGGACGGAAAGUGCCUGCCAAAAAAUCAAAUUUAGCGGGUGUGCGUCCCAAAGAGCACGCCUACCAACGGCGCCUG
.((((((.(((....)))..))).)))...(((((.((.(((........))).))((((((((.((.....))))))))))......)))))... ( -32.90, z-score =  -1.55, R)
>droSec1.super_17 887850 96 - 1527944
GCCGCCAACUGGGACCAGAAUGGACGGAAAGUGCCUGCCAAAAAAUCAAAUUUGGUGGGUGUGCGUCCCAAAGAGCACGCCUACCAACGGCGCCUG
.((((((.(((....)))..))).)))...(((((((.........))...(((((((((((((.((.....))))))))))))))).)))))... ( -38.20, z-score =  -2.77, R)
>droYak2.chrX 15656180 96 - 21770863
GCCGCCACCUGGGAUCACAACGGACGCAAAGUGGCCGCCAAGAGAUGCGAUCUGGUGGGUGUGCGUCCCAAGGAGCAGGCCUAUGAGCGGCACCUG
(((((((((((...((.....(((((((....(.((((((.((.......)))))))).).)))))))....)).))))....)).)))))..... ( -39.20, z-score =  -0.85, R)
>droEre2.scaffold_4690 7393085 96 - 18748788
GCCGUCACUUGGGACCACAAUGGACGGAAAGUGGCCGCCAAAAGGUGCGAUUUGGUGGGUGUGCGUCCCAAGGAGCAGCCCCACCAGCGGCGCCUG
((.(((((((....((.....)).....))))))).))....((((((...((((((((..(((.(((...))))))..))))))))..)))))). ( -42.20, z-score =  -1.29, R)
>consensus
GCCGCCACCUGGGACCACAAUGGACGGAAAGUGCCUGCCAAAAAAUCAAAUUUGGUGGGUGUGCGUCCCAAAGAGCACGCCUACCAGCGGCGCCUG
(((((....((((........(((((.(....((((((((((........)))))))))).).)))))...........))))...)))))..... (-26.75 = -27.19 +   0.44)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:51:40 2011