Structure #15349

Summary

Genome/Assembly hg17
Chromosome/Contig chr1
Strand -
Position 119,219,689 - 119,219,805
Number of sequences 4
Organisms human, mouse, rat, dog
Mean pairwise identity 90.78
Columns 120
Mean single MFE -33.78
Consensus MFE -27.52
Combinations/base pair 47 / 40 = 1.18
SCI 0.81
z-score -2.81
RNA class probability 0.969824

This structure is part of cluster 6258

Alignment

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  90.78
 Mean single sequence MFE: -33.77
 Consensus MFE: -27.52
 Energy contribution: -27.40
 Covariance contribution:  -0.12
 Mean z-score:  -2.81
 Structure conservation index:   0.81
 SVM decision value:   1.65
 SVM RNA-class probability: 0.969824
 Prediction: RNA

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>hg17.chr1/119219805-119219689
AAGGUGUUGAGUAAAUAAGAAAUGGCAGCAAACAUUUCUUGUUAGUGAGGGAGAGAAUAAAAGGCAUGUCAGUCAGGGUUUCUGGGUGCAACUUUGGUUCAAUUAUCUUCAGAUGU
.............(((((((((((........)))))))))))..((((((.((((((.((((...((.((.((((.....)))).)))).)))).))))..)).))))))..... ( -26.60)
>mm5.chr3/61373938-61374058
AAGGUGUCGAGUAAAUAAGAAGUGGCAGCAACCAUUUCUUAUUAGCAAGGAAGAGAAUAAAAGGCAUGUCACUCAGAGGGUUUGAGUGAGUGCAACUUUGGUUCAAUUAUCUUCAGAUGU
...(..((..((.((((((((((((......)))))))))))).))...(((((((((.((((((((.(((((((((...)))))))))))))..)))).)))).....))))).))..) ( -38.90)
>rn3.chr2/64276085-64276205
AAGGUGUCGAGUAAAUAAGAAGUGGCAGCGACCAUUUCUUAUUAGCAAGAGAGAGAAUAAAAGGCACGUCACUCAGAGGGCUUGAGUGAGUGCAACUUUGGUUCAAUUAUCUUCAGAUGU
((((((((..((.((((((((((((......)))))))))))).))..))....((((.((((((((.((((((((.....))))))))))))..)))).))))...))))))....... ( -39.10)
>canFam1.chr17/58966304-58966188
AAGGUGUUGAGUAAAUAAGAAAUGGCAGCAAACAUUUCUUGUUAGUGAGGGAGAGAAUAAAAGGCAUGUCACUCAGGGUUUCUGGGUGCAACUUUGGUUCAAUUAUCUUCAGAUGU
.............(((((((((((........)))))))))))..((((((.((((((.((((...((.(((((((.....))))))))).)))).))))..)).))))))..... ( -30.50)
>consensus
AAGGUGUCGAGUAAAUAAGAAAUGGCAGCAAACAUUUCUUAUUAGCAAGGGAGAGAAUAAAAGGCAUGUCACUCAG__GGUUUC__UGAGUGCAACUUUGGUUCAAUUAUCUUCAGAUGU
((((((((..(..(((((((((((........)))))))))))..)..))....((((.((((((((.((((((((.....))))))))))))..)))).))))...))))))....... (-27.52 = -27.40 +  -0.12) 

	

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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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