Structure #15353

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr1
Strand	-
Position	119,219,727 - 119,219,845
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	91.36
Columns	120
Mean single MFE	-34.2
Consensus MFE	-27.65
Combinations/base pair	35 / 32 = 1.09
SCI	0.81
z-score	-1.81
RNA class probability	0.761859

This structure is part of cluster 6258

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  76.74
 Mean single sequence MFE: -34.20
 Consensus MFE: -27.65
 Energy contribution: -27.65
 Covariance contribution:   0.00
 Mean z-score:  -1.81
 Structure conservation index:   0.81
 SVM decision value:   1.40
 SVM RNA-class probability: 0.951930
 Prediction: RNA

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>hg17.chr1/119219845-119219727
UAGGAUCCUGGGGUGCAAGUCUUCAGUGCCGGAGGCUUUCAAGGUGUUGAGUAAAUAAGAAAUGGCAGCAAACAUUUCUUGUUAGUGAGGGAGAGAAUAAAAGGCAUGUCAGUCAGGG
......(((((...(((.((((((((..((............))..))))...(((((((((((........)))))))))))..................)))).)))...))))). ( -30.80)
>mm5.chr3/61373978-61374098
UAGGAUCCUGGGGUGCAAGUCUUCAUUGCCAGAGGCUGUCAAGGUGUCGAGUAAAUAAGAAGUGGCAGCAACCAUUUCUUAUUAGCAAGGAAGAGAAUAAAAGGCAUGUCACUCAGAGGG
......(((.(((((((.((((((....((.((.(((.....))).))..((.((((((((((((......)))))))))))).))..))....)).....)))).)).)))))..))). ( -36.50)
>rn3.chr2/64276125-64276245
UAGGAUCCUGGGGUGCAAGUCUUCAUUGCCAGAGGCUGUCAAGGUGUCGAGUAAAUAAGAAGUGGCAGCGACCAUUUCUUAUUAGCAAGAGAGAGAAUAAAAGGCACGUCACUCAGAGGG
......(((.((((((..(....)..((((.((.(((.....))).))..((.((((((((((((......)))))))))))).))................)))).).)))))..))). ( -34.10)
>canFam1.chr17/58966344-58966226
UAGGAUCCUGGGGUGCAAGUCGUCAGUGCCGGAGGCUUUCAAGGUGUUGAGUAAAUAAGAAAUGGCAGCAAACAUUUCUUGUUAGUGAGGGAGAGAAUAAAAGGCAUGUCACUCAGGG
......((((((..(((.(((.((((..((............))..))))...(((((((((((........)))))))))))...................))).)))..)))))). ( -35.40)
>consensus
UAGGAUCCUGGGGUGCAAGUCUUCAGUGCCAGAGGCUGUCAAGGUGUCGAGUAAAUAAGAAAUGGCAGCAAACAUUUCUUAUUAGCAAGGGAGAGAAUAAAAGGCAUGUCACUCAG__GG
.......(((((..(((.(((((...(((..((.(((.....))).))..)))(((((((((((........))))))))))).................))))).)))..))))).... (-27.65 = -27.65 +   0.00)

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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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