Structure #152454

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr5
Strand	-
Position	141,211,952 - 141,212,067
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	79.26
Columns	120
Mean single MFE	-40.48
Consensus MFE	-28.83
Combinations/base pair	32 / 28 = 1.14
SCI	0.71
z-score	-1.7
RNA class probability	0.730702

This structure is part of cluster 84280

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  79.26
 Mean single sequence MFE: -40.48
 Consensus MFE: -28.83
 Energy contribution: -29.08
 Covariance contribution:   0.25
 Mean z-score:  -1.70
 Structure conservation index:   0.71
 SVM decision value:   0.42
 SVM RNA-class probability: 0.730702
 Prediction: RNA

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

>hg17.chr5/141212067-141211952
GAAGAAUCACCCUAUUUAUCUGCCCCUUACCCCCAACUUGGCUUGGGGUGACAGUGCUAGGAAGGAGAGCAUUGUUAGGCUGGUAGCCCUGGCAUACGAAGCCCUUCUACAGAGG
((((...........(((((.(((......((((((......))))))((((((((((.........))))))))))))).)))))....(((.......)))))))........ ( -33.70)
>canFam1.chr2/37412998-37412884
GAAGAAUCACCCUAUUCUCUGCUCCUUGCCCCUACCUUGGCUUGGGGUAACAGUGCUGGGAAGGAGAGCAUUGUUAGGCUGGUAGCCUCAGCAUACACAGCCCUUCUAUUGAGG
((((................(((((..(((........)))..)))))(((((((((.........))))))))).((((((((((....)).))).)))))))))........ ( -36.60)
>mm5.chr18/38630969-38630854
GUAGAAUCACCCUGUUCUCUGCCUCCUUACCCCUAUUUGUGUUUGGGGUAACAGUGCUGGGAAGGGGUGCACUGUUAGGGUGGUGGCCCUGACUUCUACAGCCCUUCUAUGGAGG
((((((.((((((.(((((.((((..(((((((...........))))))).)).)).)))))))))))....((((((((....))))))))))))))...((((.....)))) ( -48.40)
>rn3.chr18/1760-1646
GUAGAAUCACCCUAUUAUCUGCCUCCUCCUUUCCCCCCACUUGUGUUUGGGGUAACAGUGCUGGAAUGCACUGUUAGGGUGGUGGCCCUGGCAUCUACAGCCCUUCUAUGGAGG
((((((((((((......................(((((........)))))(((((((((......)))))))))))))))).((....)).)))))...((((.....)))) ( -43.20)
>consensus
GAAGAAUCACCCUAUUC_UCUGCC_____CCUUACCCCCACCUGGGCUUGGGGUAACAGUGCUGGGAAGGAGAGCACUGUUAGGCUGGUAGCCCUGGCAUACACAGCCCUUCUAUGGAGG
.....(((((((((..................((((((...........))))))(((((((...........)))))))))))))))).((....)).........((((.....)))) (-28.83 = -29.08 +   0.25)

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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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