Structure #32876

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr11
Strand	-
Position	2,107,747 - 2,107,863
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	76.59
Columns	120
Mean single MFE	-66.25
Consensus MFE	-52.42
Combinations/base pair	61 / 41 = 1.49
SCI	0.79
z-score	-5.64
RNA class probability	0.999264

This structure is part of cluster 15949

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  76.59
 Mean single sequence MFE: -66.25
 Consensus MFE: -52.42
 Energy contribution: -51.30
 Covariance contribution:  -1.12
 Mean z-score:  -5.64
 Structure conservation index:   0.79
 SVM decision value:   3.47
 SVM RNA-class probability: 0.999264
 Prediction: RNA

######################################################################

>hg17.chr11/2107863-2107747
ACCCUGCCUUGUCUCCAGGAGGUCCGAAGCUCUGUGGGACCUCUUGGGGGCAAGGUGGGGUGAGGCCGGGGAGUAGGGAGGUCAGGCGGGUCUGAGCCCACAGAGCAGGAGAGCUG
..(((((((((((((((((((((((.(.......).))))))))))))))))))(((((.(.(((((.(.((.(.....).))...).))))).).)))))...)))))....... ( -63.10)
>canFam1.chr18/56651182-56651064
ACCCUGUCUUGUCCCCAGGAGGCUCAGAGCUCCACGGGGCAUCCUGGGGCCCAGGCAGGGUGAGGUCGGGGAGUAGGGGAGGUCAGGAGGAUGCAGGCCCUGCAGAGCAGGAGAGCUG
(((((((((.(.((((((((.((((...(.....).)))).)))))))).).)))))))))...........((((((...(.((......)))...))))))..(((......))). ( -51.30)
>mm5.chr7/116-0
ACCCCACCUUGCCCCCAGGAGGUCUGGAGCUCUACAGACCUCCUGGGGGCAAGGUGGGGUGAGGCCCGGAGUUGGGGAAGCUAGGAGGCUUAAAGCCUACAGAGCCAGGAGAACUG
((((((((((((((((((((((((((........))))))))))))))))))))))))))....((((....))))...(((..(((((.....)))).)..)))(((.....))) ( -77.70)
>rn3.chr1/117-0
ACCCCAUCUUACCCUCAGGAGGUCUGGAGCUCUACAGACCUCCUGGGGGCAAGGUGGGGUGAGGCCUGGAGCUGGGGAAGCGAGGAGGCUUUAAAGCCUUCAGAGCCAGGAGAACUG
((((((((((.(((((((((((((((........))))))))))))))).)))))))))).((.(((((.(((.....)))..(((((((....)))))))....)))))....)). ( -72.90)
>consensus
ACCCCACCUUGCCCCCAGGAGGUCCGGAGCUCUACAG_ACCUCCUGGGGGCAAGGUGGGGUGAGGCCGGGAAGU_GGGGAAGCCAGGAGGCUUUAA_GCCC_ACAGAGC_AGGAGAACUG
((((((((((((((((((((((((((........))).)))))))))))))))))))))))..(((..((((((..((....))....))))))...)))...(((..(.....)..))) (-52.42 = -51.30 +  -1.12)

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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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