Structure #56925

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr13
Strand	+
Position	94,774,638 - 94,774,757
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	81.4
Columns	120
Mean single MFE	-34.03
Consensus MFE	-20.99
Combinations/base pair	33 / 26 = 1.27
SCI	0.62
z-score	-2.39
RNA class probability	0.922944

This structure is part of cluster 29090

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  81.40
 Mean single sequence MFE: -34.03
 Consensus MFE: -20.99
 Energy contribution: -19.55
 Covariance contribution:  -1.44
 Mean z-score:  -2.39
 Structure conservation index:   0.62
 SVM decision value:   1.15
 SVM RNA-class probability: 0.922944
 Prediction: RNA

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>hg17.chr13/94774638-94774757
CACUCAGGGCCUUAUCCUGCCAUUGAGCCUCUCAAUGAUAUCAGCAGGAUGUGGCCCGAAGGUUUUUCCUCCCCUGGUUUCCCCAAACAGAAAAUGCUGGCCUUUGUUUAGACAGUACU
.(((..(((((.(((((((((((((((...)))))))......)))))))).)))))((((((...........(((.....)))..(((......)))))))))........)))... ( -39.30)
>mm5.chr14/111040398-111040516
CACUCAGAGCCUUAUCCUGCCUUUGAGCCUCCUAGGAUAUCAACAGGAUGCGGCCUGGAUAUUUUCCUCCCCUGACUUCCUAAAACACAAAAUGCAGUCUUUUGUCUAGGCAGCACAU
...((((.(((.(((((((...((((.((.....))...))))))))))).)))..(((.....)))....)))).................(((.((((.......)))).)))... ( -30.10)
>rn3.chr15/103640440-103640558
CACUCAGAGCCUUAUCCUGCCUUUGAGCCUCCUAGGAUAUCAACAGGAUAUGGCCUGGAUAUUUCCCUCCCCUGGCUUCCUAAGACACAAAAUGCGGUCUUUUGUCUGGGCAGCACGU
...((((.(((.(((((((...((((.((.....))...))))))))))).)))))))........((.(((.(((.....(((((.(.......))))))..))).))).))..... ( -35.00)
>canFam1.chr22/15237987-15237869
CACUCAGGGCCUUAUCCUGCUAUUGAGUCUCCUAGGGUAUCAGCAGGAUAUGGCCCCAAGGAUUUUCCUCUCCCGGUUUCCCCAAACAGAAAAUGCCAUCCUUUGUCUAAACAGUACU
.(((..(((((.(((((((((...((..((.....))..))))))))))).)))))...((((((((.......((....))......)))))).))...............)))... ( -31.72)
>consensus
CACUCAGAGCCUUAUCCUGCCAUUGAGCCUCCUAG_GAUAUCAACAGGAUAUGGCCCGAAGA_UUUUCCUCCCCUGGCUUCCCAAAACACAAAAUGCAGUCCUUUGUCUAGACAGCAC_U
......(((((.(((((((...((((...((.....))..))))))))))).)))))...((.....((......)).....))...................((((....))))..... (-20.99 = -19.55 +  -1.44) 

	

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Consensus structure

Secondary structure graph

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Montain plot

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Dotplot

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