Structure #117671

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr20
Strand	+
Position	34,330,779 - 34,330,896
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	69.94
Columns	120
Mean single MFE	-47.82
Consensus MFE	-24.28
Combinations/base pair	23 / 21 = 1.10
SCI	0.51
z-score	-2.36
RNA class probability	0.987944

This structure is part of cluster 62382

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  69.94
 Mean single sequence MFE: -47.83
 Consensus MFE: -24.28
 Energy contribution: -25.84
 Covariance contribution:   1.56
 Mean z-score:  -2.36
 Structure conservation index:   0.51
 SVM decision value:   2.10
 SVM RNA-class probability: 0.987944
 Prediction: RNA

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>hg17.chr20/34330779-34330896
CCAGGCCAGGCUCAGAUGGAGCUAGAACAAGCGUUUGCUGGGGUCAAGCUCCCGCUCCGAGGCCCUGCCUCAUCUACAGGGGGCCUAAGCCUGGUCUGUGACCCCUGUCUGUAGGGA
.(((((((((((.((..((((((.((...(((....)))....)).)))))).((((((((((...)))))..(....)))))))).)))))))))))....(((((....))))). ( -56.50)
>canFam1.chr24/28021031-28021146
CCAGGCCAGUCUCAGAUGGAGCCAGAACAAGCUUUUGCUGGGGUCAAGCUCCUGCUCUGAGGCCCUGCCUCAUCAGCAGGGGCCCCAGCCUGGUCUUGACCCUUGUCUGUAGGGA
(.(((((((........(((((........))))).(((((((((.....((((((.((((((...))))))..)))))))))))))))))))))).).((((.......)))). ( -53.10)
>mm5.chr2/156652030-156652126
CCAGGCCAGAUUCACAGCAAGCCUUUACCUGGGUCCAACUCCUGCAGGAAGCCCUGAUCCUCAGCGGGGGACUGAGCCUGGCCUGUGACCUGCCUG
.(((((.((..((((((...(((.....((.(((((....(((((((((........))))..)))))))))).))...))))))))).))))))) ( -38.70)
>rn3.chr3/146911528-146911629
CCAGGCCAGGCUCCCAGCAAGGCUUUACCUGGGUCCAGCUCCUACAGGAAGCCCUGAUCCUCAGCAGGGGGUUGAGCCUGGCCCGUGACCCGCCUGCAGGA
...((((((((((.......((((((...((((.......))))...))))))..(((((((....))))))))))))))))).....((.(....).)). ( -43.00)
>consensus
CCAGGCCAGGCUC__________ACAACAAGCCUUUACCGGGGUCAAGCU_CCUGCAC_GAAGCCCUG__CCUCAGC____AGGGGCCUGAGCCUGGCCUGUGA__CCUGCCUGUA_GGA
.((((((((((((...........................(((((................)))))....((((........))))...))))))))))))................... (-24.28 = -25.84 +   1.56)

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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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