Structure #115082

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr20
Strand	-
Position	496,890 - 497,004
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	80.31
Columns	120
Mean single MFE	-59.02
Consensus MFE	-42.05
Combinations/base pair	48 / 36 = 1.33
SCI	0.71
z-score	-2.62
RNA class probability	0.992929

This structure is part of cluster 61043

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  80.31
 Mean single sequence MFE: -59.02
 Consensus MFE: -42.05
 Energy contribution: -41.42
 Covariance contribution:  -0.62
 Mean z-score:  -2.62
 Structure conservation index:   0.71
 SVM decision value:   2.36
 SVM RNA-class probability: 0.992929
 Prediction: RNA

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>hg17.chr20/497004-496890
GGAGCGGCUGGGGGCUCCUGUGGGGGGGGCUGACCUGGCCCAUCAGGGCAGCUGGGGGCCUGGAAGAGGCCUCCGGGCGGGGGGAAAUGGACGAUUAGUCCAGCUGCCUAGCCC
.((..(((..(((((((((.....)))))))..))..)))..)).((((..((((((((((.....))))))))))..(((.((...(((((.....))))).)).))).)))) ( -63.20)
>canFam1.chr24/27505860-27505979
GGAGUGGCUGGGGGCUCCCGUGGGGGGGGGGGGCUAACCUGGCCCAUCAGGGCAGCUGGGGGCCCAGAGUAGGCCUAUAGACCAGGGGGAAAUGGGCCAUUAGCCCUGCUGCCUGGCUC
(((((........))))).((.(((.((.((((((((..((((((((..((((..((((....)))).....)))).....((....))..)))))))))))))))).)).))).)).. ( -59.50)
>mm5.chr2/29432844-29432962
GGAGUCACAAGGGGCUUCUUCGGGAGGGGGGGUGGUGACCUAGCCCAUCAGGGCAGCUGGGGGCCCAGAAGAGGCCUUGGGUCAGGGGAAAUGGACCAUUAGUUCAGCUGCCUGGCCC
..........((((((((((((((..(((.........)))..)))....((((........)))).)))))))))))((((((((((...(((((.....))))).)).)))))))) ( -54.80)
>rn3.chr3/28528345-28528460
GGAGUCACAAGGGGCUUCUGCGAAAGGGGGGGUGACCUGGCCCAUCAGGGCAGCUGGGGGCCCAGAAGAGGCCUCGGGUCAGGGGAAAUGGACCAUUAGUCCAGUUGCCUGGCCC
..........(((((((((.(....)..(((....)))(((((.((((.....)))))))))....)))))))))((((((((.((..(((((.....))))).)).)))))))) ( -58.60)
>consensus
GGAGUCACAAGGGGCUCCUGCGGGAGGGGGG___CUGACCUGGCCCAUCAGGGCAGCUGGGGGCCCAGAAGAGGCCUCGGGUCAGGGG__AAAUGGACCAUUAGUCCAGCUGCCUGGCCC
((.(((.....((((((((.....)))(((........))))))))....(((((((((((((((.......)))))))).............(((((.....))))))))))))))))) (-42.05 = -41.42 +  -0.62)

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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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