Structure #116612

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr20
Strand	+
Position	17,891,413 - 17,891,530
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	81.09
Columns	120
Mean single MFE	-34.54
Consensus MFE	-22.05
Combinations/base pair	40 / 32 = 1.25
SCI	0.64
z-score	-2.47
RNA class probability	0.961646

This structure is part of cluster 61845

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  81.09
 Mean single sequence MFE: -34.54
 Consensus MFE: -22.05
 Energy contribution: -25.43
 Covariance contribution:   3.38
 Mean z-score:  -2.47
 Structure conservation index:   0.64
 SVM decision value:   1.51
 SVM RNA-class probability: 0.961646
 Prediction: RNA

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

>hg17.chr20/17891413-17891530
ACACCAACCAUUCUUACCGGUAGCCUGCCAACACACAAGCAGUUCACAGUAGAACACUGCAGACUGCAGGGCAUUUUCAGGCUACAUAGCCUCAAGUUCCUAGAACAGGAACUGAGG
...................((((((((........(..((((((..((((.....))))..))))))..).......))))))))....(((((.((((((.....))))))))))) ( -40.36)
>mm5.chr2/144018019-144018136
ACACUAGCCAUUCUUACCAGUAGUAGCCUGCCAGCACACAAGCAAUCCACAAUAGAACACUGCAGAGAGCAGGGCUGGUGGCUACUCAGCCCCAAGCUCCCAGAACAGGAACCGAGA
.((((((((.((((.....((((....))))..((......))..........))))..((((.....))))))))))))....((((((.....))).((......))....))). ( -29.80)
>rn3.chr3/132698856-132698973
ACACUAGCCAUUCUUACCAGUAGUAGUCUGCCAACACACAAGCAAUCCACAGUAGAACACUGCAGAUUGCAGGGUUGGAGGCUACUCAGCCCCAAGCUCCCAGAACAGGAACUGGGA
...................(.((((((((.(((((.(....((((((..((((.....))))..))))))..))))))))))))))).((.....))((((((........)))))) ( -37.50)
>canFam1.chr24/42629085-42628968
ACACCAACCAUUCUAACCAGUAGUCUACCAACACACAAGCUGUCCACGGUAGAACACCGCAAACUGCAGGGCAUUUGGAGGCUACGUAGCCCCGAGUUCCUAGAACAGGAACCAAGG
.......((...(((....(((((((.((((.........(((((..(((.....)))((.....)).))))).))))))))))).)))....(.((((((.....)))))))..)) ( -30.50)
>consensus
ACACCAACCAUUCUUACC___AGUAGCCUGCCAACACACAAGCAAUCCACAGUAGAACACUGCAGACUGCAGGGCAGGU___GGCUACUCAGCCCCAAGCUCCCAGAACAGGAACCGAGA
......................((((((.((((((.(....((((((..((((.....))))..))))))..)))))))...)))))).....((((.(((((.......))))))))). (-22.05 = -25.43 +   3.38)

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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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