Structure #117675

Summary

Genome/Assembly hg17
Chromosome/Contig chr20
Strand -
Position 34,330,779 - 34,330,896
Number of sequences 4
Organisms human, dog, mouse, rat
Mean pairwise identity 69.94
Columns 120
Mean single MFE -50.15
Consensus MFE -28.08
Combinations/base pair 41 / 28 = 1.46
SCI 0.56
z-score -2.55
RNA class probability 0.99889

This structure is part of cluster 62382

Alignment

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  69.94
 Mean single sequence MFE: -50.15
 Consensus MFE: -28.08
 Energy contribution: -27.71
 Covariance contribution:  -0.37
 Mean z-score:  -2.55
 Structure conservation index:   0.56
 SVM decision value:   3.27
 SVM RNA-class probability: 0.998890
 Prediction: RNA

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>hg17.chr20/34330896-34330779
UCCCUACAGACAGGGGUCACAGACCAGGCUUAGGCCCCCUGUAGAUGAGGCAGGGCCUCGGAGCGGGAGCUUGACCCCAGCAAACGCUUGUUCUAGCUCCAUCUGAGCCUGGCCUGG
(((((......)))))...(((.(((((((((((..((((((.......))))))....((((((((........)))(((....))).......))))).))))))))))).))). ( -53.70)
>canFam1.chr24/28021146-28021031
UCCCUACAGACAAGGGUCAAGACCAGGCUGGGGCCCCUGCUGAUGAGGCAGGGCCUCAGAGCAGGAGCUUGACCCCAGCAAAAGCUUGUUCUGGCUCCAUCUGAGACUGGCCUGG
.((((.......))))......((((((..((((((.((((.....)))))))))(((((...((((((.(((...(((....))).)))..)))))).)))))..)..)))))) ( -54.80)
>mm5.chr2/156652126-156652030
CAGGCAGGUCACAGGCCAGGCUCAGUCCCCCGCUGAGGAUCAGGGCUUCCUGCAGGAGUUGGACCCAGGUAAAGGCUUGCUGUGAAUCUGGCCUGG
(((((((((((((((((...((((((.....)))))).(((.(((..(((.((....)).)))))).)))...)))...))))).)))).))))). ( -39.30)
>rn3.chr3/146911629-146911528
UCCUGCAGGCGGGUCACGGGCCAGGCUCAACCCCCUGCUGAGGAUCAGGGCUUCCUGUAGGAGCUGGACCCAGGUAAAGCCUUGCUGGGAGCCUGGCCUGG
.((((....))))...((((((((((((....(((((........)))))...((.(((((.(((..((....))..)))))))).)))))))))))))). ( -52.80)
>consensus
UCC_UACAGACAGG__UCACAGACCAGGCUCAGGCCCCC____GAUGAGG__CAGGGCCUC_CAGCAGG_AGCUGGACCCAAGCAAAGGCUUGCUCU__________GAGCCUGGCCUGG
...................((((((((((((((((((.................))))))..(((((((..(((.......))).....)))))))...........)))))))))))). (-28.08 = -27.71 +  -0.37) 

	

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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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