Structure #4875

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr1
Strand	+
Position	18,733,617 - 18,733,736
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	78.15
Columns	120
Mean single MFE	-52.72
Consensus MFE	-39.28
Combinations/base pair	51 / 40 = 1.27
SCI	0.74
z-score	-2.17
RNA class probability	0.979236

This structure is part of cluster 776

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  78.15
 Mean single sequence MFE: -52.73
 Consensus MFE: -39.28
 Energy contribution: -40.40
 Covariance contribution:   1.12
 Mean z-score:  -2.17
 Structure conservation index:   0.74
 SVM decision value:   1.83
 SVM RNA-class probability: 0.979236
 Prediction: RNA

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

>hg17.chr1/18733617-18733736
CUGCCCUCUGCCCGCGCCUUCCAGUGACAGGGGGUGGGCGGAGGGCGCCGGGAGGGGGAAGUUAAGCGGCUGCCUGUUUGUUUAUGGGCACAGGAAGCUUUAUUGGUUUUACACUCCAG
..(((((((((((((.((((........)))).)))))))))))))....((((...((((..((..((((.(((((..(((....)))))))).))))...))..))))...)))).. ( -58.00)
>mm5.chr4/15880990-15880876
AUGCCCUCAGCCUGGCCUUCAAGGGGCAGGGGUGGGUGGAGGGCACACGAGGGGGGUUUAAGCAGCUGCCCAUUUGUUUAGGGGUGGAGAACACUUUGCUAGCUUGCACUGCAG
.(((((((.(((((.((((........)))).))))).))))))).......(.(((.((((((((..(((.........)))(((.....)))...))).))))).))).).. ( -43.50)
>rn3.chr5/14478692-14478576
AUGCCCUCAGCCUGGCCUUCAAGGGGAAGGGAGUGGGUGGAGGGCAUCCGAGGGGGGGGUUAAGCAGCUGCCCAUUUGUUUAGGGGUGCAGAACACUUUGCUGGCUUGCACUGCAA
((((((((.(((((.(((((.....)))))...))))).)))))))).((((.(((.((((....)))).))).))))....(.(((((((..((......))..))))))).).. ( -47.80)
>canFam1.chr2/7158743-7158623
CUGCCCUCUGCCCGCGCCUCCGAGUGGCAGGGGGUGGGCGGAGGGCACCGGGAGGAGGGAGGUGAAGCGGCUGCCUGUUUGUUUAUGGGCCCAGGAAGCUUUAUUGGUUUUACACUCCAG
.((((((((((((((.(((((....))..))).))))))))))))))((....))..(((((((((((((((.((((...(((....))).)))).))))......))))))).)))).. ( -61.60)
>consensus
AUGCCCUCAGCCCG_GCCUUCAAGGGGCAGGGGGUGGGCGGAGGGCACCCGAAGGGGG__GGUUAAGCAGCUGCCCAUUUGUUUAGGGGCGCAGAAAACUUUACUGG_CUUACACUCCAG
.((((((((((((((.((((........)))).))))))))))))))...((((.(((..(((.((((..((((((((......))))))..))...)))).)))...)))...)))).. (-39.28 = -40.40 +   1.12)

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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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