Structure #50139

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr12
Strand	+
Position	88,267,150 - 88,267,269
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	85.81
Columns	120
Mean single MFE	-37.58
Consensus MFE	-30.39
Combinations/base pair	43 / 35 = 1.23
SCI	0.81
z-score	-2.54
RNA class probability	0.977739

This structure is part of cluster 25144

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  85.81
 Mean single sequence MFE: -37.58
 Consensus MFE: -30.39
 Energy contribution: -29.95
 Covariance contribution:  -0.44
 Mean z-score:  -2.54
 Structure conservation index:   0.81
 SVM decision value:   1.80
 SVM RNA-class probability: 0.977739
 Prediction: RNA

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>hg17.chr12/88267150-88267269
CCCCCACCUUGGAAUGAAUGUACACUUCCAAAGGACUCGUUCCCACAGGGUGGUGGAAGGAACAACAGAGACAGCUAUGUGCCCACAUGCUCAGCCAUCUGCCAUUCCAACCACAUGUC
....(((((((....(((((....((.....))....)))))...)))))))((((..((((...((((...(((.((((....)))))))......))))...))))..))))..... ( -34.70)
>mm5.chr10/31610527-31610408
CCCCCAUCCUGGAAUGAAUAUAUGCUUCCAAGGGACUUGUUUCCAGAGCGUGGCGGGAGGAACAACAGAGACAGCUCUGUGCCCACACGCUCAGCCAUCUGCUGUUCCAACCACACUCC
((((((((((((((...(((..(.((.....)).)..))))))))).).)))).))).((((((.((((....(((..(((......)))..)))..)))).))))))........... ( -36.50)
>rn3.chr7/106191660-106191540
CCCCCACCUUGGAAUGAAUAUAUACUUCCCAAGGGACUUGUUUCCAGAGCGUGGCGGGAGGAACAACAGAGACAGCUAUGUGCCCACACGCCCAGCCAUCUGCUGUUCCAACCACACUCC
((((((((((((((.......(((..(((....)))..)))))))).)).)))).))).((((((.((((....(((..(((......)))..)))..)))).))))))........... ( -38.51)
>canFam1.chr15/33351719-33351839
CCCCCACCCUGGAAUGAAUGUACUCUUCCAAAAGGAUUCAUUUCCAGAGGGUGGUGGAAGGAACAACAGACACAGCCCUGUGCCCACACACACCGCCAUCUGCCGUUCCAACCACAUGUC
....((((((((((.((......))))))....(((......)))..))))))((((..(((((..((((....((..((((......))))..))..))))..)))))..))))..... ( -40.60)
>consensus
CCCCCACCCUGGAAUGAAUAUACACUU_CCAAAGGACUCGUUUCCAGAGCGUGGCGGAAGGAACAACAGAGACAGCUAUGUGCCCACACGCUCAGCCAUCUGCCGUUCCAACCACACGCC
.(((((((((((...(((((....(((....)))....))))))))..)))))).))..((((((.((((....(((..(((......)))..)))..)))).))))))........... (-30.39 = -29.95 +  -0.44)

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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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