Structure #115242

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	-46.05
Consensus MFE	-33.7
Combinations/base pair	48 / 37 = 1.30
SCI	0.73
z-score	-2.66
RNA class probability	0.999805

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: -46.05
 Consensus MFE: -33.70
 Energy contribution: -33.95
 Covariance contribution:   0.25
 Mean z-score:  -2.66
 Structure conservation index:   0.73
 SVM decision value:   4.12
 SVM RNA-class probability: 0.999805
 Prediction: RNA

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>hg17.chr20/1222131-1222249
GCAGGUGGCAUGGUGACAAACACCAUGGCAACCUGCCUCCUUGCUAGGGCCUAGAAGGGAGGGAGGACCUGAGAGAGCACAGGAUGCACACUGAGUUUUCUGAGUAGGAUCCUGAGAG
.((((((.(((((((.....))))))).)..(((.(((((((.((((...)))).))))))).))))))))........((((((.(..(((.((....)).))).).)))))).... ( -53.00)
>mm5.chr2/30019277-30019158
ACAGGCAACGUGGCAAUAAAUGCCAUGGCAACAUGCCUCCUCUCUCGGGCUAUGAUGAGAGGGAGGAGUUAAGAAGACACAGGACACUCACUGGGGCCUCUGAGCAGGAUCCUGAAGAG
...(((..(((((((.....)))))))..(((...(((((.((((((........))))))))))).))).........(((........)))..)))(((...(((....))).))). ( -41.30)
>rn3.chr3/29130215-29130096
ACAGGCCACAUGACAGAGAAUGCCAUGGCAACAUGCCUCCUCUCUGGGGCUAUGAUGAGAGGGAGGAGUUGAGAGGACGCAGGACACACACUGGGGCCUCUGGGCAGGAUCCUGAAGAA
.((((((................((((....))))(((((.((((.(........).))))))))).(((.(((((.(.(((........))).).))))).))).))..))))..... ( -43.50)
>canFam1.chr24/28100962-28100851
GCAGGUGGCAUAGUGACAUAGACUAUGGCAACCUGUCUCCUCUCUGGGGCCCGGAGAGGGAGGGAGGACUUGAGAGGGCACACCCAGGCUUCUGAGUAGGAUCCUGGAGAG
(((((((.((((((.......)))))).).))))))...(((((..((..((..(((((..(((.(..(((....)))..).)))...))))).....))..))..))))) ( -46.40)
>consensus
ACAGGCGACAUGGCAACAAAUACCAUGGCAACAUGCCUCCUCUCUGGGGCCAUGA_AGAGAGGGAGGACUUGAGAGGACACAGGACACACACUGAGGCCUCUGAGCAGGAUCCUGAAGAG
.((((...(((((((.....)))))))....((((((((((((((....(((.....))))))))))))...(((((.(.(((........))).).)))))..)))))..))))..... (-33.70 = -33.95 +   0.25)

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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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