Structure #115262

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr20
Strand	+
Position	1,222,249 - 1,222,337
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	84.93
Columns	89
Mean single MFE	-41.43
Consensus MFE	-29.77
Combinations/base pair	26 / 23 = 1.13
SCI	0.72
z-score	-3.12
RNA class probability	0.98757

This structure is part of cluster 61099

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 89
 Columns: 89
 Strand: +
 Mean pairwise identity:  84.93
 Mean single sequence MFE: -41.42
 Consensus MFE: -29.77
 Energy contribution: -30.02
 Covariance contribution:   0.25
 Mean z-score:  -3.12
 Structure conservation index:   0.72
 SVM decision value:   2.08
 SVM RNA-class probability: 0.987570
 Prediction: RNA

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>hg17.chr20/1222249-1222337
GUGGCUCCCUUUGGGCCUGGGUGGCUUCUGCCCUCCCAUGAGGGACCCUGCCUGCAAGGUCCCAUCCCAGCAGGGGAAAUGCGUCUUC
(((..((((((((((..((((.(((....)))..))))...((((((.((....)).))))))..))))..))))))..)))...... ( -40.00)
>mm5.chr2/30019365-30019277
GAGGCACCCUAUGGGACUGGGUGGCUUCUGCCUUCCCAAGAGGGACCCUGCCUGUGAGGUCCCAUCCCAGCAGGGGAAAUGCCACUUC
..((((((((.(((((.((((.(((....)))..))))...(((((((.......).)))))).)))))..))))....))))..... ( -43.00)
>rn3.chr3/29130303-29130215
GAGGUACCCUGUGGGCCUGGGUGGCUUCUGCCUUCCCAAGAGGGACCCUGCCUGUGAGGUCCCAUCCCAGCAGGGGAAAUACCACUUC
..(((((((((((((..((((.(((....)))..))))...(((((((.......).))))))..)))).)))))....))))..... ( -41.40)
>canFam1.chr24/28101050-28100962
GUGGCUCCCUUUGAGCCUGGGUGGCUUCUGUCCUCCCCUUAGGGACAGCCACCUGCAAGGUCCUGUCCCAGUAGGGGAAUGCCACUUC
(((((.......(((((.....)))))......((((((..(((((((..(((.....))).)))))))...))))))..)))))... ( -41.30)
>consensus
GAGGCACCCUUUGGGCCUGGGUGGCUUCUGCCCUCCCAAGAGGGACC_CUGCCUGCAAGGUCCCAUCCCAGCAGGGGAAAUGCCACUUC
..(((.(((((((((...(((.(((....)))..)))....(((((.............)))))..))))).)))).....)))..... (-29.77 = -30.02 +   0.25)

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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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