Structure #488

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr21
Strand	+
Position	25,637,739 - 25,637,825
Number of sequences	5
Organisms	human, mouse, rat, dog, chicken
Mean pairwise identity	75
Columns	92
Mean single MFE	-19.86
Consensus MFE	-12.76
Combinations/base pair	30 / 20 = 1.50
SCI	0.64
z-score	-1.8
RNA class probability	0.903541

This structure is part of cluster 63887

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 92
 Columns: 92
 Strand: +
 Mean pairwise identity:  75.00
 Mean single sequence MFE: -19.86
 Consensus MFE: -12.76
 Energy contribution: -12.72
 Covariance contribution:  -0.04
 Mean z-score:  -1.80
 Structure conservation index:   0.64
 SVM decision value:   1.03
 SVM RNA-class probability: 0.903541
 Prediction: RNA

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>hg17.chr21/25637739-25637825
CCAUAAGCAGGCAGACAAAAGCUGUGAGAGAGAGGCUUUCCUAUCAAAUGUGAUGGGAAAUAAGAUUUAAAUAUGGGUUUGCCCAC
.........(((((((....(((.(....)...)))((((((((((....))))))))))................)))))))... ( -24.80)
>mm5.chr16/84910136-84910220
CCAUAAGCAGGCAAACAGAAAAGCUGUGAGAGGCUUUCUUAUUAAAUGUGAUUGGGAAUAAGAUUUAAAUAUUGGUUUGCCCAC
.........(((((((....(((((......)))))(((((((..(......)...)))))))...........)))))))... ( -17.90)
>rn3.chr11/24001052-24001136
CCAUAAGCAGGCAAACAGAAAAGCUGUGAGAGGCUUCCCUAUUAAAUGUGAUGGGAAAUAAGAUUUAAAUAUUGGUUUGCCCAC
.........(((((((....(((((......))))).(((((((....)))))))...................)))))))... ( -20.60)
>canFam1.chr31/23915016-23915100
CCAUAAGCAGGCAGACAGAAAAGCUGCAAGAGGCUUUCCUAUCAAAUGUGAUGGGAAAUAAGAUUUAAAUAUCGGUUUGCCCAC
.........(((((((.((...(((......)))((((((((((....)))))))))).............)).)))))))... ( -25.30)
>galGal2.chr1/96200404-96200489
GUAGGGUCAAACAGAUUUUAAUAAAAUCAUGAUGUUUUCUUAUACAAGUAACAGUGAAUAAACAUUUAUAUUGUGGGCUACUCAC
...(((((..((((((((.....)))))..(((((((..((((..........))))..))))))).....)))..)..)))).. ( -10.70)
>consensus
CCAUAAGCAGGCAGAC___AGAAAAGCUGU____GAGAGGCUUUCCUAUCAAAUGUGAUGGGAAAUAAG_AUUUAAAUAUUGGUUUGCCCAC
.........(((((((........((((..........))))(((((((((....)))))))))..................)))))))... (-12.76 = -12.72 +  -0.04)

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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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