Structure #115244

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr20
Strand	-
Position	1,222,131 - 1,222,249
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	72.94
Columns	120
Mean single MFE	-37.03
Consensus MFE	-23.71
Combinations/base pair	43 / 35 = 1.23
SCI	0.64
z-score	-1.68
RNA class probability	0.856393

This structure is part of cluster 61099

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  72.94
 Mean single sequence MFE: -37.03
 Consensus MFE: -23.71
 Energy contribution: -24.52
 Covariance contribution:   0.81
 Mean z-score:  -1.68
 Structure conservation index:   0.64
 SVM decision value:   0.81
 SVM RNA-class probability: 0.856393
 Prediction: RNA

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>hg17.chr20/1222249-1222131
CUCUCAGGAUCCUACUCAGAAAACUCAGUGUGCAUCCUGUGCUCUCUCAGGUCCUCCCUCCCUUCUAGGCCCUAGCAAGGAGGCAGGUUGCCAUGGUGUUUGUCACCAUGCCACCUGC
(((((((((((.((((.((....)).)))).).))))))((((.....(((.(((...........))).))))))).))))((((((.((.((((((.....)))))))).)))))) ( -40.90)
>mm5.chr2/30019158-30019277
CUCUUCAGGAUCCUGCUCAGAGGCCCCAGUGAGUGUCCUGUGUCUUCUUAACUCCUCCCUCUCAUCAUAGCCCGAGAGAGGAGGCAUGUUGCCAUGGCAUUUAUUGCCACGUUGCCUGU
.....((((((...(((((..(....)..)))))))))))........((((.((((((((((..........))))).)))))...))))...(((((.....))))).......... ( -36.50)
>rn3.chr3/29130096-29130215
UUCUUCAGGAUCCUGCCCAGAGGCCCCAGUGUGUGUCCUGCGUCCUCUCAACUCCUCCCUCUCAUCAUAGCCCCAGAGAGGAGGCAUGUUGCCAUGGCAUUCUCUGUCAUGUGGCCUGU
.....((((..((.....(((((.(.(((........))).).)))))((((.(((((.((((............)))))))))...)))).(((((((.....))))))).)))))). ( -35.20)
>canFam1.chr24/28100851-28100962
CUCUCCAGGAUCCUACUCAGAAGCCUGGGUGUGCCCUCUCAAGUCCUCCCUCCCUCUCCGGGCCCCAGAGAGGAGACAGGUUGCCAUAGUCUAUGUCACUAUGCCACCUGC
.(((((.((....(((((((....)))))))..))((((...((((.............))))...)))).)))))(((((.((.(((((.......))))))).))))). ( -35.52)
>consensus
CUCUUCAGGAUCCUACUCAGAAGCCCCAGUGUGUGUCCUGUGCCCUCUCAACUCCUCCCUCCCA_UCAUAGCCCCAGAGAGGAGGCAGGUUGCCAUGGCAUUUGUCACCAUGCCACCUGC
.....((((..((((((.(((((.(.(((........))).).)))))....(((((.((((.......))....)).)))))))))))....(((((((.....)))))))...)))). (-23.71 = -24.52 +   0.81)

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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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