Structure #118029

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr20
Strand	+
Position	37,552,028 - 37,552,147
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	70.15
Columns	120
Mean single MFE	-44.93
Consensus MFE	-25.84
Combinations/base pair	45 / 30 = 1.50
SCI	0.58
z-score	-2.1
RNA class probability	0.988436

This structure is part of cluster 62565

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  70.15
 Mean single sequence MFE: -44.92
 Consensus MFE: -25.84
 Energy contribution: -26.40
 Covariance contribution:   0.56
 Mean z-score:  -2.10
 Structure conservation index:   0.58
 SVM decision value:   2.12
 SVM RNA-class probability: 0.988436
 Prediction: RNA

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>hg17.chr20/37552028-37552147
GGAGGAGAGAGGCCUCCAAGCAAUCCUCACUGGAGUGGGUUUUGGCUCAAGAGUGAGGUGGGCCUUGCCGGCCCUGCUUGACUGGCCAAAGUCUGAUGAUUUUUCUUGUGGUCCAGACA
(((...((((((((..((((((..(((((((....(((((....)))))..))))))).(((((.....)))))))))))...))))((((((....))))))))))....)))..... ( -50.40)
>mm5.chr2/159324727-159324846
GGAGCAGAGAGGGCUCUGAUCAGUUCUAAGUGAAGCGGUUUUGGCUCAGGAGUUGGACUAGGCCUGCCUGGUUCCGUUUCUGUAGCCAAAGUUUGAUGGUUUCUCUUGUGGUCCAGAUG
(((.((...((((((......))))))(((.(((((.(((((((((((((((..((((((((....))))))))..)))))).)))))).....))).))))).))).)).)))..... ( -46.80)
>rn3.chr3/149912397-149912507
GGGCCUCUGAUCAGUUCUAAGUGGAGUGGUUUUGGCUCAGGAAUUGGACCAGGCCCUGCUGGUUCUGCUUCUGUAGCCAAAGUCUGAUGGUUUCUCUUGUGGUCCAGAUG
(((((.(.(((((.((((....)))).(..((((((((((((...(((((((......)))))))...))))).)))))))..)...)))))......).)))))..... ( -39.30)
>canFam1.chr24/30705606-30705710
GGAGGGGAGAGGUCUCCCGGCAGUCCUGAGUGGAGCGGUUUUGGCUCAAGAGUUGGGAUGGGCCUUGCUGGCGCUGCUCGGCUGGCCGAAGUCUGGUCCAGAUG
(((.(((((....))))).....)))....((((.(((((((((((....(((((((..(.(((.....))).)..))))))))))))))).))).)))).... ( -43.20)
>consensus
GGAGGAGAGAGGCCUCCGAGCAGUCCUAAGUGGAGC_GGUUUUGGCUCAAGAGUUGGACUAGGCCUUGCUGGCUCUGCUUCUCUAGCCAAAGUCUGAUGGUUUCUCUUGUGGUCCAGAUG
(((((.......)))))......(((.....)))...(..((((((((((((((.(((((((......))))))).))))))).)))))))..).......................... (-25.84 = -26.40 +   0.56)

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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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