Structure #54421

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr13
Strand	-
Position	57,553,766 - 57,553,886
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	82.63
Columns	120
Mean single MFE	-31.94
Consensus MFE	-20.09
Combinations/base pair	37 / 29 = 1.28
SCI	0.63
z-score	-2.2
RNA class probability	0.842209

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: +
 Mean pairwise identity:  82.63
 Mean single sequence MFE: -31.94
 Consensus MFE: -20.09
 Energy contribution: -20.52
 Covariance contribution:   0.44
 Mean z-score:  -2.20
 Structure conservation index:   0.63
 SVM decision value:   0.76
 SVM RNA-class probability: 0.842209
 Prediction: RNA

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>hg17.chr13/57553886-57553766
AUGACUGACAAAUCAUGCUCAGAAGUUGUGAGUACAGCAGGUACCAUCUGUGAGAAACUGAGCCUCGCAGACUUUAAAGAACAUAAUCAGCAGCUUAUGGAGUAAAUGCCCCAUAAGCUG
....((((((.....)).))))..((((((.((((.....))))..((((((((.........))))))))..........))))))...((((((((((.((....)).)))))))))) ( -35.70)
>mm5.chr14/76754425-76754311
AUGACUGACAAGUCACACUAAGAAGCAGUGAGUACAGCAGGCACCAUCUGUGAGAAACUGAACCCCAGACAUCAAGACUAUCAGCAGCUUAUGGGCUAAAUGCCACAUAAGCUG
....((((..((((.((((.......)))).((...(((((.....)))))......(((.....))))).....)))).))))((((((((((((.....))).))))))))) ( -33.20)
>rn3.chr15/66911410-66911296
AUGACUGACAAGUCACACUAAGAAGCAGCGAAUACAGCAGGCACCAUCUGUGAGAAACUGAACCCCAGAUAUCAAGACUAUCAGCAGCUUAUGGACUAAAUGCCACAUAAGCUG
....((((..((((.(((......((.((.......))..)).......))).....(((.....))).......)))).))))(((((((((............))))))))) ( -25.42)
>canFam1.chr22/17163480-17163360
AUGACUGACACGCCAUGCUAAGAAGUUGUGAGUAUAGCAGGUACCAUCUGUGAGAAGCCGUGGCUCACAGACACUAAAGAACAUAAUCGGCAGCUUAUGGAGUAAAUGCCACAUAAGCUG
....((((...(((.(((((..............))))))))....((((((((.........))))))))...............))))(((((((((..((....))..))))))))) ( -33.44)
>consensus
AUGACUGACAAGUCACACUAAGAAGCAGUGAGUACAGCAGGCACCAUCUGUGAGAAACUGAACCCC__AGACAUCAAA____ACAAUCAGCAGCUUAUGGACUAAAUGCCACAUAAGCUG
....((((...(((.(.....)..((((......)))).)))....((((((((.........))))))))...............))))(((((((((............))))))))) (-20.09 = -20.52 +   0.44)

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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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