Structure #115260

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr20
Strand	-
Position	1,222,210 - 1,222,328
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	80.61
Columns	120
Mean single MFE	-52.77
Consensus MFE	-34.11
Combinations/base pair	39 / 32 = 1.22
SCI	0.65
z-score	-3.02
RNA class probability	0.995938

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:  80.61
 Mean single sequence MFE: -52.77
 Consensus MFE: -34.11
 Energy contribution: -34.67
 Covariance contribution:   0.56
 Mean z-score:  -3.02
 Structure conservation index:   0.65
 SVM decision value:   2.63
 SVM RNA-class probability: 0.995938
 Prediction: RNA

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>hg17.chr20/1222328-1222210
UUUCCCCUGCUGGGAUGGGACCUUGCAGGCAGGGUCCCUCAUGGGAGGGCAGAAGCCACCCAGGCCCAAAGGGAGCCACCUCUCAGGAUCCUACUCAGAAAACUCAGUGUGCAUCCUG
....((((..((((..(((((((((....)))))))))...((((..(((....))).))))..)))).))))..........(((((((.((((.((....)).)))).).)))))) ( -51.30)
>mm5.chr2/30019237-30019356
UUUCCCCUGCUGGGAUGGGACCUCACAGGCAGGGUCCCUCUUGGGAAGGCAGAAGCCACCCAGUCCCAUAGGGUGCCUCCUCUUCAGGAUCCUGCUCAGAGGCCCCAGUGAGUGUCCUG
..((((.....)))).((((((((((.(((.(((((((....)))).(((....))).))).))).....(((.(((((.....(((....)))....)))))))).))))).))))). ( -55.70)
>rn3.chr3/29130175-29130294
UUUCCCCUGCUGGGAUGGGACCUCACAGGCAGGGUCCCUCUUGGGAAGGCAGAAGCCACCCAGGCCCACAGGGUACCUCUUCUUCAGGAUCCUGCCCAGAGGCCCCAGUGUGUGUCCUG
..((((.....))))((((.((((...((((((((((...(((((..(((....))).)))))((((...))))............))))))))))..)))).))))............ ( -52.10)
>canFam1.chr24/28100930-28101041
UUCCCCUACUGGGACAGGACCUUGCAGGUGGCUGUCCCUAAGGGGAGGACAGAAGCCACCCAGGCUCAAAGGGAGCCACCUCUCCAGGAUCCUACUCAGAAGCCUGGGUG
(((((((...(((((((.(((.....)))..)))))))..))))))).........(((((((((((..((((((......))))((....)).))..).)))))))))) ( -52.00)
>consensus
UUUCCCCUGCUGGGAUGGGACCUCACAGGCAG_GGUCCCUCAUGGGAAGGCAGAAGCCACCCAGGCCCAAAGGGAGCCACCUCUUCAGGAUCCUACUCAGAAGCCCCAGUGUGUGUCCUG
....(((....))).((((.((((...(((((.(((((.....(((..(((....))).))).(((((....)).))).........))))))))))..)))).))))............ (-34.11 = -34.67 +   0.56)

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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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