Structure #54180

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr13
Strand	-
Position	53,677,616 - 53,677,733
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	87.22
Columns	120
Mean single MFE	-39.09
Consensus MFE	-26.17
Combinations/base pair	52 / 39 = 1.33
SCI	0.67
z-score	-3.2
RNA class probability	0.92269

This structure is part of cluster 27543

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  87.22
 Mean single sequence MFE: -39.09
 Consensus MFE: -26.17
 Energy contribution: -24.43
 Covariance contribution:  -1.75
 Mean z-score:  -3.20
 Structure conservation index:   0.67
 SVM decision value:   1.15
 SVM RNA-class probability: 0.922690
 Prediction: RNA

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>hg17.chr13/53677733-53677616
UGGAAUACUAUGAGAAGGGCCAUUUUUUUCUUGUGGUAUUUUUGGCCAUGACUCAGGGUGAAAUGUCUGAUAUGUCAUGAGAAAGAUGGCCUUCAUUAAACUUCCAGGCCAUUUGCA
.(((((((((..(((((((.....)))))))..)))))))))..(((((((((((((........)))))...))))))....(((((((((.............))))))))))). ( -37.02)
>mm5.chr14/73066434-73066316
UGGGAUACUAUAAGAAGGGCCAUUCUUUCUUGAAGUAUUUUUGGCCAUGACUCAGGGUGGGAUGCUUUAUAUGUGUCACAAGAAAGAUGGCCCUCAUUACAUCUCCAGCCCAUUUGCA
((((......(((..((((((((.((((((((............((((........))))(((((.......))))).))))))))))))))))..))).........))))...... ( -38.26)
>rn3.chr15/62800134-62800016
UGGGAUACUAUAAGGAGGGCCAUUCUUUCUUGAAGUAUUUUUGGCCAUGACUCAGGGUGGGAUGCUUUAUAUGUGUCAUAAGAAAGAUGGCCUUCAUUACAUCUCCAGCCCAUUUGCA
((((..........(((((((((.((((((((............((((........))))(((((.......))))).))))))))))))))))).............))))...... ( -36.10)
>canFam1.chr22/14098397-14098281
UGGGAUACUAUGAGAAGGGCCAUUCUUUCUUGUGGUAUUUUUGGCUGUGUCUCAGGGUGGGAUGUUUGAUAUGUCAUGAGAAAGAUGGCCCCUCAUUAGAUUUCCAGGCAUUUGCA
(((((..(((((((..(((((((.((((((..((..((.((..((...(((((.....)))))))..)).))..))..))))))))))))))))).)))..))))).((....)). ( -45.00)
>consensus
UGGGAUACUAUAAGAAGGGCCAUUCUUU_CUUGAAGUAUUUUUGGCCAUGACUCAGGGUGGGAUGCUUGAUAUGU__CAUAAGAAAGAUGGCCC_UCAUUACAUCUCCAGCCCAUUUGCA
(((((.....(((((.(((((((.((((.(((((((((((((..(((.((...)).)))))))))))...........)))))))))))))))).)).)))...)))))........... (-26.17 = -24.43 +  -1.75)

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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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