Structure #168

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr21
Strand	+
Position	15,807,334 - 15,807,454
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	89.54
Columns	120
Mean single MFE	-29.07
Consensus MFE	-25.31
Combinations/base pair	36 / 31 = 1.16
SCI	0.87
z-score	-1.43
RNA class probability	0.619695

This structure is part of cluster 63684

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  89.54
 Mean single sequence MFE: -29.08
 Consensus MFE: -25.31
 Energy contribution: -25.62
 Covariance contribution:   0.31
 Mean z-score:  -1.43
 Structure conservation index:   0.87
 SVM decision value:   0.18
 SVM RNA-class probability: 0.619695
 Prediction: RNA

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>hg17.chr21/15807334-15807454
AUAUCAGGGAUUGUAUUAUUCUGGCCACCUGGGGAAAUAAGCAGCCAGGAAAAUCUGGCUUGGACUGGGACAAGACUAAUGCACUAAUACUUAUUUAUGAAAGCAUCAUAUAUUCUGCU
....(((((..(((((((.(((.....((..(.....((...((((((......))))))))..)..))...))).)))))))............(((((.....)))))..))))).. ( -24.50)
>canFam1.chr31/15350732-15350852
CAUAUCAAGAAUUGUAUUCUUCUGGCCACCUGGGGAAAUAAGCAGCCAGGAAAAUCUGGCUUGGGCUGGAAGAAGACUAAUGUACUAAUAUUUAUUUAUGAAAGCAUCAUAUAUUCUGCU
.......(((((.((.((((((..(((.((...))........((((((......))))))..)))..)))))).))...................(((((.....))))).)))))... ( -30.40)
>mm5.chr16/77189092-77189212
AUAUCAGGGAUUGUGUUCUUCUGGCCACCUAGGGAAAUAUGGAGCCAGAAAAAUCUAGCUAAGGCUGGAAGAAGACUAAUGCACUAAUAUUUAUUUAUGAAAGCAUCAUAUAUUCUGUU
....(((((...((.((((((..(((.((...........))(((.(((....))).)))..)))..)))))).))..((((....(((......)))....))))......))))).. ( -30.80)
>rn3.chr11/15624412-15624532
AUAUCAGGGAUUGUGCUCUCCUGGCCACCUAGGGAAAUACAGAGCCAGAAAAAUCUGGCUUUGGCUGGAAGAAGACUAAUGCACUAAUAUUUAUUUAUGAAAGCACCAUAUAUUCUGUU
....(((((...((((((.(((((....)))))))....((((((((((....)))))))))).................))))...........((((.......))))..))))).. ( -30.60)
>consensus
_AUAUCAGGGAUUGUAUUCUUCUGGCCACCUAGGGAAAUAAGCAGCCAGAAAAAUCUGGCUUGGGCUGGAAGAAGACUAAUGCACUAAUAUUUAUUUAUGAAAGCAUCAUAUAUUCUGCU
.......(((((.((.((((((..(((.((...))........(((((((....)))))))..)))..)))))).))...(((....(((......)))....)))......)))))... (-25.31 = -25.62 +   0.31) 

	

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Consensus structure

Secondary structure graph

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Montain plot

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Dotplot

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