Structure #34330

Summary

Genome/Assembly hg17
Chromosome/Contig chr11
Strand +
Position 18,681,135 - 18,681,241
Number of sequences 4
Organisms human, mouse, rat, dog
Mean pairwise identity 77.65
Columns 120
Mean single MFE -34.43
Consensus MFE -24.71
Combinations/base pair 39 / 28 = 1.39
SCI 0.72
z-score -3.05
RNA class probability 0.999664

This structure is part of cluster 16746

Alignment

Alignment

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RNAz output

	  
###########################  RNAz 0.1.1  #############################

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  77.65
 Mean single sequence MFE: -34.43
 Consensus MFE: -24.71
 Energy contribution: -23.15
 Covariance contribution:  -1.56
 Mean z-score:  -3.05
 Structure conservation index:   0.72
 SVM decision value:   3.85
 SVM RNA-class probability: 0.999664
 Prediction: RNA

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>hg17.chr11/18681135-18681241
GGGUUUUAAGACCCAAGGCACAUUCAAUGCAAGGGGAGCAAGGAUGGGACAACUCCAUCUUCUGCUGCCCAUGUGAAAAAUAAUAAAAAUCAAGAGCCAUUGGCUG
(((((....)))))..............(((.(((.((((((((((((.....)))))))).)))).))).)))....................((((...)))). ( -34.70)
>mm5.chr7/34463211-34463325
GGGUCUUAGACCCAAAGCACAGUCAAUGCAAGGGGAGCGAGGAUGGGGUAACUCCAUCCUCUACUGCCCAUGUGAAAAAAUAAAAUAAAAUAAAAACCUAAGGGCCAUUGGCUU
(((((...))))).......((((((((...(((.((.((((((((((...))))))))))..)).)))...........................((....)).)))))))). ( -39.60)
>rn3.chr1/97686869-97686985
GGGUCUUAAGACCCGAGGCACAGUCAAUGCAAGCGGAGUAAGGAUGGGGUAACUCCAUCCUCUACUGCCCAUGUGAAAAAAAUAAAAUUAAAUUAAAACCCAAGGUCUGUUGGUUU
(((((....)))))(((.(((((.....(((.(.(((((((((((((((...))))))))).)))).))).))).......................(((...)))))).)).))) ( -32.40)
>canFam1.chr21/43335364-43335475
GGGUCUUAAGACCUAAGGCACAUUCAAUGCAAAAGGAGCAAGGAUGGGUGGGACAACUCUAUCCCUUGCUGCUUACGUGAACAAAAAAAUAAAAACCAAGGGCCAUCGCUG
(((((....)))))..(((...((((......(((.(((((((((((((......)).)))).))))))).)))...))))..............(....))))....... ( -31.00)
>consensus
GGGUCUUAAGACCCAAGGCACAGUCAAUGCAAGGGGAGCAAGGA____UGGGACAACUCCAUCCUCUACUGCCCAUGUGAAAA_AA______AAAAUAAAAACC_AAGGGCCAUUGGCUG
(((((....)))))..(((.........(((.(((.((((((((....((((.....)))))))).)))).))).)))........................((...)).......))). (-24.71 = -23.15 +  -1.56) 

	

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Consensus structure

Secondary structure graph

Secondary structure

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Montain plot

Secondary structure

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Dotplot

Secondary structure

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