Structure #115232

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr20
Strand	-
Position	1,222,054 - 1,222,171
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	74.72
Columns	120
Mean single MFE	-43.77
Consensus MFE	-28.18
Combinations/base pair	35 / 28 = 1.25
SCI	0.64
z-score	-1.63
RNA class probability	0.706603

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:  74.72
 Mean single sequence MFE: -43.77
 Consensus MFE: -28.18
 Energy contribution: -29.74
 Covariance contribution:   1.56
 Mean z-score:  -1.63
 Structure conservation index:   0.64
 SVM decision value:   0.36
 SVM RNA-class probability: 0.706604
 Prediction: RNA

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>hg17.chr20/1222171-1222054
GGAGGCAGGUUGCCAUGGUGUUUGUCACCAUGCCACCUGCUUAGCCUGGAGUCCCGCAGGCCUCUCCCCAGGUGGCCAGAGGCUGCCACUUGGAAAGGAAGGUAGAAAGAAAACCCU
((((((((((.((.((((((.....)))))))).))))))...(((((........)))))..))))(((((((((........))))))))).......(((.........))).. ( -51.00)
>mm5.chr2/30019082-30019198
GGAGGCAUGUUGCCAUGGCAUUUAUUGCCACGUUGCCUGUUCAGCCUGGAGUCCCACAGGCCUGUCCCCAGGCAGCUGGAGGCAGCCACUUGGAAUAGAAGGUGAAAGGAAACCCU
..(((...((((((.(((((.....))))).((((((((..(((((((........)))).)))....))))))))....))))))(((((........)))))...(....)))) ( -46.10)
>rn3.chr3/29130020-29130136
GGAGGCAUGUUGCCAUGGCAUUCUCUGUCAUGUGGCCUGUUCGGCCUGGAGUCCCACAGGCCUGUCCCCAGGCAGCUGGAGGCAGCCACUUGGAAUAGAAGGUGAAAGGAAACCCU
((.(((.....)))....(((..((((((..(((((......((((((........))))))((((.((((....)))).)))))))))...).)))))..)))...(....))). ( -45.90)
>canFam1.chr24/28100786-28100891
GGAGACAGGUUGCCAUAGUCUAUGUCACUAUGCCACCUGCCUUCUCCCCUGGAGUCCCACAGCCCUUUGCCCAGGCAGCCAGAAUGGAAGGUGGAAGGAAACCCU
((((((((((.((.(((((.......))))))).)))))...)))))...((..(((....(((..((((....))))((.....))..)))....)))..)).. ( -32.10)
>consensus
GGAGGCAGGUUGCCAUGGCAUUUGUCACCAUGCCACCUGCUC___AGCCUGGAGUCCCACAGGCCUGUCCCCAGGCAGCCAGAGGCAGCCACUUGGAAUAGAAGGU_GAAAGGAAACCCU
((......((((((((((((.....))))))((((((((.......(((((........))))).......))))))))....))))))......................(....))). (-28.18 = -29.74 +   1.56) 

	

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Consensus structure

Secondary structure graph

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Montain plot

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Dotplot

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