Structure #115662

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr20
Strand	-
Position	6,772,144 - 6,772,247
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	77.53
Columns	104
Mean single MFE	-32.26
Consensus MFE	-19.35
Combinations/base pair	36 / 29 = 1.24
SCI	0.6
z-score	-1.74
RNA class probability	0.551862

This structure is part of cluster 61291

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 104
 Columns: 104
 Strand: +
 Mean pairwise identity:  77.53
 Mean single sequence MFE: -32.27
 Consensus MFE: -19.35
 Energy contribution: -20.73
 Covariance contribution:   1.37
 Mean z-score:  -1.74
 Structure conservation index:   0.60
 SVM decision value:   0.04
 SVM RNA-class probability: 0.551862
 Prediction: RNA

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>hg17.chr20/6772247-6772144
GCCAGGUGAGAAUCAGGUGGCAGACAUGGCAGGAACUGAAUUCUCCAGAGGGCUCCAGCUUUGCAGUUCACAGCACACAAAACUGGAGCCCUUCUUUGCCCUA
(((.(((....))).)))((((((..(((.((((......)))))))(((((((((((.((((..((.....))...)))).))))))))))).))))))... ( -38.30)
>mm5.chr2/133375039-133374935
GCCAGGUGAGGAGCAGGUGGCAGAGACAGCAGCAACUAAACUCUGCAGAGGAUCCCAGCAUUGCGAUUCCUUAGCACACAAAACUGGAACCCUUCCUUGCCCUG
....((..(((((..(((.((((((..((......))...)))))).(((((((.(......).)).)))))................))).)))))..))... ( -28.80)
>rn3.chr3/121359461-121359361
GCCAGGUGAGGAGCAGGUGCAGAUUCAGCAGCAAAACUCUGCAAAGGAUCCCAGCACUGCAGUUCCUUAGCACACAAAACUGGAAGCCUUCCUUGCCCUG
....((..((((((((.(((.(((((.((((.......))))...)))))...)))))))..((((...............))))....))))..))... ( -30.56)
>canFam1.chr24/32572318-32572416
GCUGAGAACCAGGUGGCAAACACAACAGGAACUAAAGUUGCAGAGGGCUCCAGAUUUGUGGUUUAUAGCACACAAAACUAGAGCCCUUCUUUGCUCUA
((.((((.....(((.....)))....(.(((....))).)..(((((((.((.((((((((.....)).)))))).)).))))))))))).)).... ( -31.40)
>consensus
GCCAGGUGAGAAGCAGGUGGCAGACACAGCAGCAACUAAACUCUGCAGAGGACCCCAGCAUUGCAGUUCAU_AGCACACAAAACUGGAACCCUUCCUUGCCCUA
....(((((((.((.(.((.......)).).))..............(((((((((((.((((..((......))...)))).))))))))))))))))))... (-19.35 = -20.73 +   1.37)

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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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