Structure #74773

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr16
Strand	-
Position	31,943,827 - 31,943,945
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	79.86
Columns	120
Mean single MFE	-40.4
Consensus MFE	-27.77
Combinations/base pair	29 / 27 = 1.07
SCI	0.69
z-score	-1.78
RNA class probability	0.753177

This structure is part of cluster 39122

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  79.86
 Mean single sequence MFE: -40.40
 Consensus MFE: -27.77
 Energy contribution: -31.40
 Covariance contribution:   3.63
 Mean z-score:  -1.78
 Structure conservation index:   0.69
 SVM decision value:   0.48
 SVM RNA-class probability: 0.753177
 Prediction: RNA

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>hg17.chr16/31943945-31943827
UUGGGAGGGGAGGGGGGAGUGGUGCCCCCUCCUCCCUCCACUCCAUUACUCUCUGCUUGCUACUUCACUUGCCCCCAGCUCCCACCCUCAGCCCUGUGACUGGAAUGUGUGCCCCACC
.((((((.(((((((((((.((....))))))))))))).............(((...((..........))...)))))))))..(.((..((.......))..)).)......... ( -39.70)
>mm5.chr11/97181645-97181539
UUGGGAGGGGAGGGGGAGGGGCCCCUCCACUCCAUUUCUCUUUGCUUGCUACUCUUUGCUUGCCCCCACACCCGCUCAGCCCUGAGACCUGAGUGUGCGCCCCUCC
...(((((((.((((((((....)))))...............((..((........))..)))))((((((..((((....))))....).)))))..))))))) ( -42.60)
>rn3.chr10/86270619-86270514
UUGGGAGGGGAGGGGGAGGGCCCCUCCACUCCAUUUCUCUUUGCUUGCUACUCUUUGCUUGCCCCCACACCCGCUCAGCCCUGUGACCUGAGUCUGCGCCCCUCC
...(((((((.(((((((((.....)).))))..........((..((........))..)).......)))((((((.........)))))).....))))))) ( -37.10)
>canFam1.chr9/37312958-37313071
UUGGGAGGGGAGGGGGGAGUGGUGCCCCCUCCUCCCUCCACUCCAUUACUCUUUGCUUGCUACUUUUCGCUUGCCCCCACCCUCAGCCCUGUGACCUGAAUGUGUGUCCCACC
.((((((((((((((((((.((....)))))))))))))...............((..((........))..)))).(((..((((.........))))..)))..))))).. ( -42.20)
>consensus
UUGGGAGGGGAGGGGGAAGGG___________CCCCUCCACUCCAUUACUCUUUGCUUGCUACUCUUCGCUUGCCCCCA___CACCCCCUCAGCCCUGUGACCUGAAUGUGCGCCCCACC
...((((.(((((((((((.(.....).))))))))))).))))..........((..((........))..))............(((((((.........)))))))........... (-27.77 = -31.40 +   3.63) 

	

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Consensus structure

Secondary structure graph

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Montain plot

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Dotplot

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