Structure #179363

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr8
Strand	+
Position	66,073,006 - 66,073,126
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	87.36
Columns	120
Mean single MFE	-30.98
Consensus MFE	-21.67
Combinations/base pair	38 / 34 = 1.12
SCI	0.7
z-score	-1.67
RNA class probability	0.622852

This structure is part of cluster 99719

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  87.36
 Mean single sequence MFE: -30.98
 Consensus MFE: -21.67
 Energy contribution: -21.55
 Covariance contribution:  -0.12
 Mean z-score:  -1.67
 Structure conservation index:   0.70
 SVM decision value:   0.18
 SVM RNA-class probability: 0.622852
 Prediction: RNA

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>hg17.chr8/66073006-66073126
AGGGGCGCCAGUUAUCCAUAGGGGCAUCUACAGUGGAUCCAGGGACGUAGAACCUGGUGUCAACUUCUUAGAAAUUUUUCUCCCCAACUAAUGCAACCCCAUUAAAAGUCCUCUUUUAGU
.((((.((.((((.......((((.......(((.((((((((.........))))).))).)))....((((....))))))))))))...))..))))((((((((....)))))))) ( -30.51)
>canFam1.chr29/17773627-17773746
AGGGGUGCCAAUUAUCUAUAGGGGCAUCUACAGUGGAUCCAGGGAUGUAAAACCUUGUCUAAAUUCUUAGAAAUUUUACUCCCCAACUAAUGCAACCCCAUUAAAAGUUCUUUUUUAGU
.(((((((..............((.((((.....)))))).((((.((((((.....(((((....)))))..))))))))))........)).)))))((((((((....)))))))) ( -30.00)
>mm5.chr3/18115966-18116086
AGGGGUGCCAAUUAUCCCUAGGGGCACCAGAGCUGGAUCCAAGGAUGUAGAACAUGGUCUCAACUUCUUAGACAAUUUCCUCCCCAACUAAUGCAACCCCAUUAAAAGUUCUCUUUUAGU
.(((((((..((((......((((.((((...(((.(((....))).)))....)))).....((....))..........))))...)))))).)))))((((((((....)))))))) ( -30.20)
>rn3.chr2/103457825-103457945
AGGGGUGCCAAUUAUCCCUAGGGGCGCCAGAGCUGGAUCCAAGGAUGUAGAACAUCGUCUCAACUUCUUUGACAGUUUCCUCCCCAACUAAUGCAACCCCAUUAAAAGUUCUCUUUUAGU
.(((((((..((((......((((.(...((((((....((((((.((.((........)).)).)))))).)))))).).))))...)))))).)))))((((((((....)))))))) ( -33.20)
>consensus
AGGGGUGCCAAUUAUCCAUAGGGGCACCAAAACUGGAUCCAAGGAUGUAGAACAUGGUCUCAACUUCUUAGAAAUUUUCCUCCCCAACUAAUGCAACCCCAUUAAAAGUUCUCUUUUAGU
.(((((....((((......((((..((......)).((.(((((.((.((........)).))))))).)).........))))...))))...)))))((((((((....)))))))) (-21.67 = -21.55 +  -0.12)

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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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