Structure #115090

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr20
Strand	-
Position	496,929 - 497,044
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	83.78
Columns	120
Mean single MFE	-47.92
Consensus MFE	-34.3
Combinations/base pair	39 / 31 = 1.26
SCI	0.72
z-score	-1.59
RNA class probability	0.608496

This structure is part of cluster 61043

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  83.78
 Mean single sequence MFE: -47.92
 Consensus MFE: -34.30
 Energy contribution: -33.30
 Covariance contribution:  -1.00
 Mean z-score:  -1.59
 Structure conservation index:   0.72
 SVM decision value:   0.15
 SVM RNA-class probability: 0.608496
 Prediction: RNA

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>hg17.chr20/497044-496929
GAGAAACCAGGCAGCGCACAAUACAAGGAAAGCCGAAUGGGGAGCGGCUGGGGGCUCCUGUGGGGGGGGCUGACCUGGCCCAUCAGGGCAGCUGGGGGCCUGGAAGAGGCCUCCG
.......((((((((.(.(..(((..((....)).....((((((........)))))))))..).).)))).))))((((....))))....((((((((.....)))))))). ( -52.30)
>canFam1.chr24/27505900-27506019
GAGGAACCAGGCGGUGCACAAUACAAGGAAAGCCUAGUGGGGAGUGGCUGGGGGCUCCCGUGGGGGGGGGGGGCUAACCUGGCCCAUCAGGGCAGCUGGGGGCCCAGAGUAGGCCUAUA
.(((..((((.((.(.(....(((.(((....))).))).).).)).))))((((((((...(((..((....))..))).((((....))))....))))))))........)))... ( -49.70)
>mm5.chr2/29432882-29433002
GAGGAACCAGGCCGUGCACAAUACAAGGAAAGCCGAAUGGGGAGUCACAAGGGGCUUCUUCGGGAGGGGGGGUGGUGACCUAGCCCAUCAGGGCAGCUGGGGGCCCAGAAGAGGCCUUGG
......(((((((..................(((..(((((..(((((.....((((((((....)))))))).)))))....)))))...)))..((((....))))....)))).))) ( -44.10)
>rn3.chr3/28528383-28528500
GAGGAACCAGGCCGUGCACAAUACAAGGAAAACCGAAUGGGGAGUCACAAGGGGCUUCUGCGAAAGGGGGGGUGACCUGGCCCAUCAGGGCAGCUGGGGGCCCAGAAGAGGCCUCGG
......((((((((((.((....((.((....))...))....)))))...((((((((((.......(((....))).((((....)))).)).))))))))......))))).)) ( -45.60)
>consensus
GAGGAACCAGGCCGUGCACAAUACAAGGAAAGCCGAAUGGGGAGUCACAAGGGGCUCCUGCGGGAGGGGGG___CUGACCUGGCCCAUCAGGGCAGCUGGGGGCCCAGAAGAGGCCUCGG
........(((((((((.(..((...((....))...))..).)).))...((((((((((...(((...........))).((((....)))).)).))))))))......)))))... (-34.30 = -33.30 +  -1.00)

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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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