Structure #54412

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr13
Strand	+
Position	57,553,686 - 57,553,806
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	84.96
Columns	120
Mean single MFE	-36.66
Consensus MFE	-26.4
Combinations/base pair	40 / 33 = 1.21
SCI	0.72
z-score	-2.4
RNA class probability	0.941324

This structure is part of cluster 27659

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
®?x
 Mean pairwise identity:  84.96
 Mean single sequence MFE: -36.66
 Consensus MFE: -26.40
 Energy contribution: -26.65
 Covariance contribution:   0.25
 Mean z-score:  -2.40
 Structure conservation index:   0.72
 SVM decision value:   1.29
 SVM RNA-class probability: 0.941324
 Prediction: RNA

######################################################################

>hg17.chr13/57553686-57553806
UGAUCUAUAUAAAUACAGGGUUUUACAUUACAAUAUCUUCCCUUUCUACUGCCAUGUCAAGGUGGGGCUCACUCAGAGAGCAGCUUAUGGGGCAUUUACUCCAUAAGCUGCUGAUUAUGU
(((((...........((((...................)))).....(..((.......))..)..(((.....)))((((((((((((((......)))))))))))))))))))... ( -35.21)
>mm5.chr14/76754231-76754349
UGAUUUCUGUAAAGACAGGGUUUUACAUUACAAUGUUCUCAUUUCCCACUGUCAUGCCAGGGUGGGGCUCACUCAGAGAGCAGCUUAUGUGGCAUUUAGCCCAUAAGCUGCUGAUAGU
...((((((....((((..((........))..))))......(((((((.(......).)))))))......))))))((((((((((.(((.....)))))))))))))....... ( -40.10)
>rn3.chr15/66911216-66911334
UGAUUUCUAUAAAGACAGGGUUUUACAUUACAAUGUUCUCGGCUCCCACUGUCAUGCCAGGGUGGGGCCCACUCAGCGAGCAGCUUAUGUGGCAUUUAGUCCAUAAGCUGCUGAUAGU
......((((.......((((...((((....))))....(((.((((((.(......).))))))))).))))....(((((((((((.(((.....)))))))))))))).)))). ( -40.10)
>canFam1.chr22/17163280-17163400
UGAUCUAUAUCAAUACAGGGUUUUACAUGACAAUAUUCUCCUUUUUCACUGCCGUGUCCAGGUGGGGCUCACUCAGCGAGCAGCUUAUGUGGCAUUUACUCCAUAAGCUGCCGAUUAUGU
(((((............(((((((((..((((......................))))...))))))))).......(.((((((((((..(......)..))))))))))))))))... ( -31.25)
>consensus
UGAUCUAUAUAAAGACAGGGUUUUACAUUACAAUAUUCUCCUUUCCCACUGCCAUGCCAAGGUGGGGCUCACUCAGAGAGCAGCUUAUGUGGCAUUUACUCCAUAAGCUGCUGAUAAU__
(((((............((((...((((....))))........((((((..........))))))))))........(((((((((((.(((.....)))))))))))))))))))... (-26.40 = -26.65 +   0.25)

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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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