Structure #173578

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr7
Strand	-
Position	115,002,715 - 115,002,822
Number of sequences	5
Organisms	human, dog, mouse, rat, chicken
Mean pairwise identity	78.7
Columns	120
Mean single MFE	-29.6
Consensus MFE	-20.42
Combinations/base pair	34 / 25 = 1.36
SCI	0.69
z-score	-2.35
RNA class probability	0.982449

This structure is part of cluster 96359

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  78.70
 Mean single sequence MFE: -29.60
 Consensus MFE: -20.42
 Energy contribution: -19.94
 Covariance contribution:  -0.48
 Mean z-score:  -2.35
 Structure conservation index:   0.69
 SVM decision value:   1.92
 SVM RNA-class probability: 0.982449
 Prediction: RNA

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>hg17.chr7/115002822-115002715
GGUAUCAGCUUUUGAAUAUUUCAGCAGCAUUCAUUUACAUACCCACUGAGGAUUGCUGAGCAGAAAUUACCCUUUGUUCUCAGGGAUAGAAUUCAGUGGGGUUACAA
.(((.(.(((.((((.....)))).))).............(((((((((.(((.(((((((((........))))..))))).)))....)))))))))).))).. ( -32.40)
>canFam1.chr14/57391359-57391252
GGUAUCAGCUUCUGAAUAUUUCAGCAGCAUUCAUUUACAUACCCACUGAGGAUUGCUGAGCAGAAAUUACUCUUUGUUCUCAGGCAUAGAAUUCCAUGGGGUUACAA
.(((...(((.((((.....)))).)))............((((.((((((((....(((.........)))...)))))))).(((.(....).)))))))))).. ( -26.20)
>mm5.chr6/16441714-16441607
GACAUCAUCUUCUGAAUAUUUCAGUGGCCUUCAUUUGCAUACCCACUGAGGAUUUCUGAGCAGAAAUUAGCCUUUGUUCUCAGGCACAGAAUUCAGUGGGGCUACAA
.......................((((((..(....).....(((((((((((((((....))))))).((((........))))......)))))))))))))).. ( -29.70)
>rn3.chr4/42374872-42374766
ACAUCAUCUUCUGAAUAUUUCAGUGGGCUGCAUUUGCAUACCCACUGAGGAUUUCUGAGCAGAAAUUAGCCUUUGUUCUCAGGCACAGAAUUCAGUGGGGUUACAA
......(((.((((((..(((((((((.(((....)))..)))))))))(((((((....))))))).((((........)))).....)))))).)))....... ( -34.30)
>galGal2.chr1/0-120
AGUAUCAACUUCUGAAUAUUUCAGUAACACUGCAUCUCAUCUCUCAUCUACAUAUCCAUUGAGAAGUGUUCAGCAGGAACUGCCCUUUGUUCUGAAGCACAGAACUAAACUGACUUGCAA
.((((((.....))).....(((((....((((....((..(((((.............)))))..))....))))............((((((.....))))))...)))))..))).. ( -25.42)
>consensus
GGUAUCAGCUUCUGAAUAUUUCAGUAGCAUU_____________CAUUUACAUACCCACUGAGGAUUGCUGAGCAGAAAUUACCCUUUGUUCUCAGGCACAGAAUUCAGUGGGGUUACAA
.......(((.((((.....)))).)))..........................(((((((((.....(((((.(.(((......))).).)))))........)))))))))....... (-20.42 = -19.94 +  -0.48)

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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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