Structure #30296

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr10
Strand	+
Position	104,393,037 - 104,393,142
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	69.83
Columns	120
Mean single MFE	-33.8
Consensus MFE	-11.75
Combinations/base pair	24 / 21 = 1.14
SCI	0.35
z-score	-2.64
RNA class probability	0.622023

This structure is part of cluster 14402

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  69.83
 Mean single sequence MFE: -33.80
 Consensus MFE: -11.75
 Energy contribution: -14.44
 Covariance contribution:   2.69
 Mean z-score:  -2.64
 Structure conservation index:   0.35
 SVM decision value:   0.18
 SVM RNA-class probability: 0.622023
 Prediction: RNA

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

>hg17.chr10/104393037-104393142
UCUCCUAAUUUGUUGGAGGCCGCCAGCCCUCCCCUUGGAAAAAAAAAAAUCCCACCAAAAAAAAAAAAAAAAGAAUCAGGAGCGAGAGGACGCCGCGGGGCCCUC
.(((((.((((...(((((.(....).)))))..((((................))))..............)))).)))))...((((..(((....))))))) ( -24.69)
>canFam1.chr28/18137371-18137484
UCUCCUAAUUUGAGGGAGGCCGCCAGCCCUCCCCUUAAAAAAAAAGGGAAAAAAAUCCCCCCGAGAGAGCGGGCGAGCGGGCGAGCGCGGAGAAAGCCCGCGGCAGGACCCUC
...........(((((..(((((..((((..(((((.......))))).......(((((((....).).))).))..))))..))((((.......)))))))....))))) ( -44.40)
>mm5.chr??/545-638
UCUCCUAAUUUGUUGGAGACCACCAGCCCUCCCCUUGGAGGAAAAAAAAAAUCCCACCAAAGGGAGGGUGGAAAAGCGAGCUACAGGACCCUC
(((((.........)))))((.(((.(((((((.((((.((............)).)))).))))))))))...((....))...))...... ( -33.40)
>rn3.chr1/251987716-251987809
UCUCCUAAUUUGCUGGAGGCCACCAGCCCUCCCCUUGGAGAAAAAAAAAAUCCCACCAAAGGGAGGGGUGGAAAAGCGAGCUACAGGACCCUC
..((((..((((((((...)).(((.(((((((.((((.(.............).)))).))))))).)))...))))))....))))..... ( -32.72)
>consensus
UCUCCUAAUUUGUUGGAGGCCACCAGCCCUCCCCUUGGAG_AAA____AAAAAAAUCCCACCAAAAGAAGGGGAGAAAG_______AGCGA_______________GCUACAGGACCCUC
(((((.........)))))...((..(((((((.((((......................)))).)))))))...............(((...............)))....))...... (-11.75 = -14.44 +   2.69) 

	

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Consensus structure

Secondary structure graph

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Montain plot

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Dotplot

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