Structure #115847

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr20
Strand	-
Position	9,601,788 - 9,601,908
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	79.55
Columns	120
Mean single MFE	-31.86
Consensus MFE	-25.17
Combinations/base pair	43 / 30 = 1.43
SCI	0.79
z-score	-3.19
RNA class probability	0.999517

This structure is part of cluster 61411

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  72.78
 Mean single sequence MFE: -31.85
 Consensus MFE: -25.17
 Energy contribution: -23.55
 Covariance contribution:  -1.63
 Mean z-score:  -3.19
 Structure conservation index:   0.79
 SVM decision value:   5.07
 SVM RNA-class probability: 0.999972
 Prediction: RNA

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>hg17.chr20/9601908-9601788
AAAUAUGAUAAUAAACACAAUUUGAAUCCCUUUCCUGGAAACACAUUAAGGAUUAGGUGCCAGGUUUCUUCCAUCUGUUAUAACAGGAAGGCCAACUGGUAUUUUGUAGUUAUUUUAAGU
.....(((.(((((..((((....(((((......((....))......))))).((((((((...((((((...(((....)))))))))....))))))))))))..))))))))... ( -26.40)
>mm5.chr2/135958441-135958332
GAACAUGAUGAUGAAUCCCCUUCCUGGAAACACAUUAAGGAUGAGGUGCUAGGUUCCUUCCAUCUGUUAAAGAUGGAAGGACAACUGGUAUUUUGCAGUCAUUUUAAAU
......((((((..((((......((....))......))))((((((((((..(((((((((((.....)))))))))))...))))))))))...))))))...... ( -38.70)
>rn3.chr3/124189866-124189760
GAACAUGAUGAAUCCCUUUCCUGGAAACACAUGAAGGAUGGGGUGCCAGGUUCCUUCCAUCUGUUAUAACAGGAAGGACAACUGGUAUUUUGUAGUUAUUUUAAAU
.(((..........(((((..((....))...)))))((..((((((((..(((((((...(((....))))))))))...))))))))..)).)))......... ( -32.50)
>canFam1.chr24/35166240-35166360
AAAUAUGAUAACAAACACAUUUUGAACCCCUUUUGUGGAAACACAUUAAAGAUAAGGUGUCAGUUUCUUUCCAUCUGUUAUAAUAGGAAGGACAACUGGCGUUUUAUAAUUAUUUUAAAU
....................((((((...((((((((....))))..))))((((..(((((((((((((((.............))))))).))))))))..))))......)))))). ( -29.82)
>consensus
AAACAUGAUAAU___________GAAUCCCUUUCCUGGAAACACAUUAAGGAUGAGGUGCCAGGUUCCUUCCAUCUGUUAUAACAGGAAGGACAACUGGUAUUUUGUAGUUAUUUUAAAU
....(((((....................((((..((....))....))))((((((((((((..(((((((.............)))))))...)))))))))))).)))))....... (-25.17 = -23.55 +  -1.63)

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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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