Structure #116614

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr20
Strand	+
Position	17,891,450 - 17,891,570
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	83.82
Columns	120
Mean single MFE	-39.15
Consensus MFE	-25.22
Combinations/base pair	41 / 33 = 1.24
SCI	0.64
z-score	-1.96
RNA class probability	0.727773

This structure is part of cluster 61845

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  83.82
 Mean single sequence MFE: -39.15
 Consensus MFE: -25.22
 Energy contribution: -27.84
 Covariance contribution:   2.62
 Mean z-score:  -1.96
 Structure conservation index:   0.64
 SVM decision value:   0.42
 SVM RNA-class probability: 0.727773
 Prediction: RNA

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>hg17.chr20/17891450-17891570
AGCAGUUCACAGUAGAACACUGCAGACUGCAGGGCAUUUUCAGGCUACAUAGCCUCAAGUUCCUAGAACAGGAACUGAGGCUUGGAAGAAGGUCAGUGCAGCGCACUCAGCGAAUGGAUA
.((((((..((((.....))))..))))))...(((((..(...((.((.(((((((.((((((.....)))))))))))))))..))...)..)))))..(((.....)))........ ( -42.80)
>mm5.chr2/144018059-144018176
AGCAAUCCACAAUAGAACACUGCAGAGAGCAGGGCUGGUGGCUACUCAGCCCCAAGCUCCCAGAACAGGAACCGAGACUGGGAAGAAGGUCAGAGCAGCGUACUCAGCGAAUGGAUA
....(((((..........((((.....)))).((((((((((.(((.(((......((((((....(....)....))))))....)))..))).))).))).))))...))))). ( -37.60)
>rn3.chr3/132698896-132699013
AGCAAUCCACAGUAGAACACUGCAGAUUGCAGGGUUGGAGGCUACUCAGCCCCAAGCUCCCAGAACAGGAACUGGGACUGGGAAGAAGGUCAGUGCAGCGUACUCAGCGAAUGGAUA
....(((((..((.((((.(((((((((....(.((((.((((....)))))))).)((((((..(((...)))...))))))....))))..))))).))..)).))...))))). ( -39.10)
>canFam1.chr24/42629125-42629005
AGCUGUCCACGGUAGAACACCGCAAACUGCAGGGCAUUUGGAGGCUACGUAGCCCCGAGUUCCUAGAACAGGAACCAAGGCUUGGAAGAAGGUCAGUACAGUGCACUCAGCGAAUGGAUA
...((((((((((.....))))....(((.((.((((((((.((((....))))))))((((((.....))))))...(((((......)))))......)))).)))))....)))))) ( -37.10)
>consensus
AGCAAUCCACAGUAGAACACUGCAGACUGCAGGGCAGGU___GGCUACUCAGCCCCAAGCUCCCAGAACAGGAACCGAGACUGGGAAGAAGGUCAGUGCAGCGCACUCAGCGAAUGGAUA
....(((((..........((((.....)))).((((.......((.((((((((((.(((((.......))))))))))))))).)).......))))..(((.....)))..))))). (-25.22 = -27.84 +   2.62)

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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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