Structure #30294

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr10
Strand	-
Position	104,392,999 - 104,393,111
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	81.29
Columns	120
Mean single MFE	-45.53
Consensus MFE	-32.27
Combinations/base pair	49 / 32 = 1.53
SCI	0.71
z-score	-4.23
RNA class probability	0.99948

This structure is part of cluster 14402

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  81.29
 Mean single sequence MFE: -45.53
 Consensus MFE: -32.27
 Energy contribution: -30.89
 Covariance contribution:  -1.38
 Mean z-score:  -4.23
 Structure conservation index:   0.71
 SVM decision value:   3.64
 SVM RNA-class probability: 0.999480
 Prediction: RNA

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

>hg17.chr10/104393111-104392999
UCUUUUUUUUUUUUUUUUGGUGGGAUUUUUUUUUUUCCAAGGGGAGGGCUGGCGGCCUCCAACAAAUUAGGAGAGAGAGAGGGAGAAAAUGCCAAGUCCCGAUUUCUCUCCA
..............((((((..(((......)))..))))))(((((.(....).))))).........(((((((((..((((............))))..))))))))). ( -37.20)
>canFam1.chr28/18137450-18137332
CGCUCGCCCGCUCUCUCGGGGGGAUUUUUUUCCCUUUUUUUUUAAGGGGAGGGCUGGCGGCCUCCCUCAAAUUAGGAGAGAGAGAGAGGAGAAAAUGCCAAGUCCCGAUUUCUCUCCA
.((.((((.(((((((((((((((......))))))).........)))))))).)))))).............(((((((((..(.(((............))))..))))))))). ( -47.70)
>mm5.chr??/619-506
UUUCCACCCUCCCUUUGGUGGGAUUUUUUUUUUCCUCCAAGGGGAGGGCUGGUGGUCUCCAACAAAUUAGGAGAGAGAGAAGGAGAAAAAUGCCAAGUCUUGAUUUCUCUCUA
...(((((((((((((((.((((........)))).)))))))))))).)))...(((((.........)))))((((((((((((...........))))..)))))))).. ( -48.90)
>rn3.chr1/251987790-251987677
UUUCCACCCCUCCCUUUGGUGGGAUUUUUUUUUUCUCCAAGGGGAGGGCUGGUGGCCUCCAGCAAAUUAGGAGAGAGAGAAGGAGAAAAAUGCCAAGUCUUGAUUUCUCUCUA
..(((...(((((((((((.(..(.......)..).)))))))))))(((((......)))))......)))((((((((..((((...........))))..)))))))).. ( -48.30)
>consensus
_CUUUCACCCCUCCCUUUGGUGGGAUUUUUUU____UUU_CUCCAAGGGGAGGGCUGGCGGCCUCCAACAAAUUAGGAGAGAGAGAA_GGAGAAAA_UGCCAAGUCCCGAUUUCUCUCCA
....(((.((((((((((((.((((............)))).)))))))))))).))).................(((((((((..(.(((.............))))..))))))))). (-32.27 = -30.89 +  -1.38)

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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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