Structure #54890

Summary

Genome/Assembly hg17
Chromosome/Contig chr13
Strand -
Position 64,513,126 - 64,513,242
Number of sequences 4
Organisms human, mouse, rat, dog
Mean pairwise identity 81.21
Columns 120
Mean single MFE -29.17
Consensus MFE -25.4
Combinations/base pair 52 / 36 = 1.44
SCI 0.87
z-score -1.7
RNA class probability 0.854404

This structure is part of cluster 27930

Alignment

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  81.21
 Mean single sequence MFE: -29.17
 Consensus MFE: -25.40
 Energy contribution: -23.27
 Covariance contribution:  -2.12
 Mean z-score:  -1.70
 Structure conservation index:   0.87
 SVM decision value:   0.80
 SVM RNA-class probability: 0.854404
 Prediction: RNA

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>hg17.chr13/64513242-64513126
CUGGUCUUUUAACUGUCAGCUCGUGGUUGACAAGUUGAAUAAUUGGAGAAUGUGUCUGUUGGCUUAAAAUAGGAUGUUUUCUUUUAUAUGAUUUAGAGGCUGUUUUUCACCUGGAC
..((((((((((((((((((.....)))))).))))))((((..(((((((((.((((((.......))))))))))))))).))))........))))))............... ( -28.30)
>mm5.chr14/83461097-83460977
CUGGUCUUUUAACUGUCAGCUCAUGGUUGAUGAGUUGAAUAAUUAGAGAAUGCAUCUGUUGACUUCAGACAGAAUGUUUGAUUUUUUUUUUAUGAUUUGAAACCCAUUUCUUUAUUCAAC
.(((..((((((...(((((((((.....)))))))))((((..((((((((((((((((.......))))).))))...)))))))..))))...)))))).))).............. ( -25.90)
>rn3.chr15/74265439-74265323
CUGGUCUUUUAACUGUCAGCUCAUGGUUGAUGAGUUGAAUAAUUGGAGAAUGCAUCUGUUGACUUCAGACAGAAUGUUUGUUUUUUUAUGAUUUGAAGCCCAUUUUCCUAUUCAAC
..(((..(((((((((((((.....)))))).)))))))..)))((((((((..((((((.......))))))......(((((..........))))).))))))))........ ( -26.90)
>canFam1.chr22/23281805-23281689
CUGGUCUUUUAACUGUCAGCUCGUGGCUGACAAGUUGAAUAAUUGGGGAACGUGUCUGUUGGUUUAAAACAGAAUGUUUUGCUUUAUGUGAUUUGGAGCCUGUUUUUCACCUGGAC
(..((..(((((((((((((.....)))))).)))))))..))..).......((((...(((..(((((((........((((((.......)))))))))))))..))).)))) ( -35.60)
>consensus
CUGGUCUUUUAACUGUCAGCUCAUGGUUGACAAGUUGAAUAAUUGGAGAAUGCAUCUGUUGACUUAAAACAGAAUGUUU____UUUUUUAUAUGAUUUGAAGCCCAUUUUUCAACUCAAC
..(((..(((((((((((((.....)))))).)))))))..)))((((((((..((((((.......))))))...........((((((.......)))))).))))))))........ (-25.40 = -23.27 +  -2.12) 

	

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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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