Structure #72717

Summary

Genome/Assembly hg17
Chromosome/Contig chr16
Strand +
Position 1,955,182 - 1,955,309
Number of sequences 4
Organisms human, dog, mouse, rat
Mean pairwise identity 85.08
Columns 129
Mean single MFE -62.9
Consensus MFE -57
Combinations/base pair 48 / 39 = 1.23
SCI 0.91
z-score -1.99
RNA class probability 0.947563

This structure is part of cluster 37959

Alignment

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 129
 Columns: 129
 Strand: +
 Mean pairwise identity:  85.08
 Mean single sequence MFE: -62.90
 Consensus MFE: -57.00
 Energy contribution: -57.12
 Covariance contribution:   0.12
 Mean z-score:  -1.99
 Structure conservation index:   0.91
 SVM decision value:   1.35
 SVM RNA-class probability: 0.947563
 Prediction: RNA

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>hg17.chr16/1955182-1955309
GGCGUUGGUUGAAAAUCGCCCCCGGCUUUGGCCGUGGCCGCGGGUGAGAUUCGGCGCCCAGAGCCCCCGGGGGCCUCAGCUCACCGCGCGCUGCCCCAUGUGCGGCGGUGAAACCCAGGCCCCGACA
(((.(((((((((..((((((.(((((........))))).))))))..)))))...)))).)))....(((((((....(((((((((((........)))).))))))).....))))))).... ( -65.40)
>canFam1.chr6/38530148-38530021
GGCGUUGGUUGAAAAUCACCUGCGGCCCUGCCCGUGGCCGCGGGUGAGAUUCGGCGCCCAGAGCCACCGGGGGCCUCAGCUCACCGCCCACUGGUCCUUGUGGAGAGGUGAAACCCAGGCCCCGACA
(((.(((((((((..(((((((((((((.....).))))))))))))..)))))...)))).)))....(((((((....(((((.(((((........)))).).))))).....))))))).... ( -67.60)
>mm5.chr17/70242672-70242544
GGCGUUCGUUGAAAAUCACCCUCGGCUUUGGCUUGUAGCCGGGGGUGAGAUUCGGCGCCCAGAGCCACAGAGGCCUCAGCUCACCGCCCGCUGCCCCGGUGUGGGAGGGUGAAACCCAGGCCCCUACA
(((...(((((((..((((((((((((.........))))))))))))..)))))))......)))..((.(((((....(((((.(((((.((....)))))))..))))).....))))).))... ( -63.90)
>rn3.chr10/96758431-96758303
GGCGUUCGUUGAAAAUCAUCCUCGGCUUUGGCCUGUGGCCGGGGUUGAGAAUCGGCGCCCAGAGCCACAGAGGCCUCAGCUCACCCCCUGCUGCCCCAGUGUGGGAGGGUGAAACCCAGGCCCCUACA
(((...((((((...(((.((((((((.........)))))))).)))...))))))......)))..((.(((((....((((((((..(.........)..)).)))))).....))))).))... ( -54.70)
>consensus
GGCGUUCGUUGAAAAUCACCCUCGGCUUUGGC_CGUGGCCGCGGGUGAGAUUCGGCGCCCAGAG_CCACAGAGGCCUCAGCUCACCGCCCGCUGCCCC_GUGUGGGAGGGUGAAACCCAGGCCCCGACA
(((((....((((..((((((((((((.........))))))))))))..)))))))))...........(((((((....(((((((((((.........))))).)))))).....))))))).... (-57.00 = -57.12 +   0.12) 

	

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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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