Structure #48190

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr12
Strand	-
Position	53,362,785 - 53,362,902
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	81.37
Columns	120
Mean single MFE	-35.99
Consensus MFE	-25.71
Combinations/base pair	35 / 30 = 1.17
SCI	0.71
z-score	-3.31
RNA class probability	0.998677

This structure is part of cluster 24036

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  81.37
 Mean single sequence MFE: -35.99
 Consensus MFE: -25.71
 Energy contribution: -28.02
 Covariance contribution:   2.31
 Mean z-score:  -3.31
 Structure conservation index:   0.71
 SVM decision value:   3.18
 SVM RNA-class probability: 0.998677
 Prediction: RNA

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

>hg17.chr12/53362902-53362785
UUAGGACAUUUCAGGACACAAUGACCUCCUGAGUUCCUGGAAUCUCAGCAGGGAAUAGGAACUCUUGUGUCCUUCAUACCCCACUGGGCAAUUCUUUUUUCCCCAACCCCAGCUCAC
...((.......(((((((((.........(((((((((...((((....)))).)))))))))))))))))).......)).(((((...................)))))..... ( -34.15)
>mm5.chrUn_random/17694735-17694852
UGGAACAUUUCAGAACACAAGGGCUUCCUGCGGUUCCUGGAAUUUCACCAGGGAACAGGAGCCCUGUGUCCUUCACACCCCACUGGGCAGCUCUCUUUUCCCUAACUCUUUACUUAC
.((((......((.(((((.(((((.((((...(((((((.......))))))).)))))))))))))).)).....(((....)))..........))))................ ( -38.20)
>rn3.chr7/142634288-142634171
UGGAACAUUUCAGAACACAAGGGCCUCCUGUAGUUCCUGGAAUUUCAGCAGGGAACAGGAGCCCUGUGUCCUUCACACCCCACUGGGCAGUUCUCUUUUCCCUAACCCUUUACUUAC
.(((((.....((.(((((.((((.((((((..((((((.........))))))))))))))))))))).)).....(((....)))..)))))....................... ( -37.10)
>canFam1.chr27/45401005-45401124
UUGGGACAUUUCAGGAUACAAAGGCCUCCCAAGGUUCCUGGAAUCUCAGCAGAGAACACAAACCCUAGUGUCCUUCACACCCCACUGGGCAGCUUCUUUUUCCCCCAAGGCCUCUGCAC
.(((((..((((((((.......((((....)))))))))))))))))((((((.........(((((((............)))))))..((((............)))))))))).. ( -34.51)
>consensus
U_GGAACAUUUCAGAACACAAGGGCCUCCUG_AGUUCCUGGAAUCUCAGCAGGGAACAGGAACCCU_GUGUCCUUCACACCCCACUGGGCAG_UUCUCUUUUCCCCAACCCCU_ACUCAC
..((((......(((((((.(((((.(((((...((((((.........)))))).)))))))))).))))))).....(((....)))...........))))................ (-25.71 = -28.02 +   2.31)

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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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