Structure #161232

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr6
Strand	+
Position	75,043,494 - 75,043,608
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	89.68
Columns	115
Mean single MFE	-20.73
Consensus MFE	-14.94
Combinations/base pair	43 / 36 = 1.19
SCI	0.72
z-score	-1.88
RNA class probability	0.663553

This structure is part of cluster 89326

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 115
 Columns: 115
 Strand: +
 Mean pairwise identity:  89.68
 Mean single sequence MFE: -20.73
 Consensus MFE: -14.94
 Energy contribution: -16.88
 Covariance contribution:   1.94
 Mean z-score:  -1.88
 Structure conservation index:   0.72
 SVM decision value:   0.27
 SVM RNA-class probability: 0.663553
 Prediction: RNA

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>hg17.chr6/75043494-75043608
UUGUGAGCAUUCUUUUCUAAUUUUCCCCAUAAACCAGAAAUAUUAAGUGUCAUGCUAACAUCUGUGGCCUGAACAUAAAGUUGACAAAAAUCAAACCUAAUGGCUUUUCCCACU
((((.(((.....(((((..(((.......)))..)))))......((((((.((((.(....))))).)).))))...))).)))).............(((......))).. ( -15.00)
>mm5.chr9/79408401-79408515
UUGUUAGGAUUCUCUUCUAAUUUCCUCCAUAAACCAGAAAUUAUUAAGUGUCAUGCUAACAUCUGUGGCUAAACAUAAAGUUGACAAAAAUCAACUUUAAUGGCUUUUUCCACU
.((((((.((.(.(((.(((((((............)))))))..))).)..)).))))))...((((..((.(((((((((((......)))))))).)))...))..)))). ( -23.10)
>rn3.chr8/84014871-84014985
UUGUUAGCAUUCUCUUCUAAUUUCCUCCAUAAACCAGAAAUUAUUAAGUGUCAUGCUAACAUCUGUGGCUAAACAUAAAGUUGACAAAAAUCAACUUUAAUGGCUUUUUCCACU
.(((((((((.(.(((.(((((((............)))))))..))).)..)))))))))...((((..((.(((((((((((......)))))))).)))...))..)))). ( -27.60)
>canFam1.chr12/39086732-39086846
UUGUGAACAUUCUGUUCUAAUUUCCCCCAUAAACUAGAAGUAUUGAGUGUCAUGCUAACAUCUGUGACCUGAACAUAAAGUUGACAAAAAAGAACUUUAAUGGCCUUUCCUACU
((((.(((.((.(((((..(((((............)))))....((.((((((........))))))))))))).)).))).)))).((((..(......)..))))...... ( -17.20)
>consensus
UUGUGAGCAUUCUCUUCUAAUUUCCCCCAUAAACCAGAAA_UAUUAAGUGUCAUGCUAACAUCUGUGG_CUAAACAUAAAGUUGACAAAAAUCAACUUUAAUGGCUUUUCCCACU
.(((((((((.(.(((.(((((((............)))))))..))).)..)))))))))...((((...(..(((((((((((......)))))))).)))..)....)))). (-14.94 = -16.88 +   1.94)

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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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