Structure #156258

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr5
Strand	+
Position	178,978,270 - 178,978,379
Number of sequences	5
Organisms	human, dog, mouse, rat, chicken
Mean pairwise identity	78.27
Columns	120
Mean single MFE	-26.21
Consensus MFE	-17.86
Combinations/base pair	22 / 17 = 1.29
SCI	0.68
z-score	-2.09
RNA class probability	0.952803

This structure is part of cluster 86486

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  78.27
 Mean single sequence MFE: -26.21
 Consensus MFE: -17.86
 Energy contribution: -17.30
 Covariance contribution:  -0.56
 Mean z-score:  -2.09
 Structure conservation index:   0.68
 SVM decision value:   1.41
 SVM RNA-class probability: 0.952803
 Prediction: RNA

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

>hg17.chr5/178978270-178978379
AGCAAGUGGGCUAAAAAGCCAGCCUCCACCAACAGUCCAGCCCACACUACACAUUUCCUUUCGCCAAUAAAUACCCCAGCCUAUGCUUUUAGUAAGAAUCAGCAUAGGU
.....(((((((..........................))))))).................................(((((((((.............))))))))) ( -22.09)
>canFam1.chr11/9911593-9911702
AGCAAGUGGGCUAAAAAGCCAGCCUCCACCAACAGUCUAGCCCACACUACACAUUUCAUUUCGCCAGUAAUACCCCAGGCCUAUGCUUUUAGUAGGAAUCAGCAUAGGU
.....((((((((........................)))))))).................................((((((((((((.....)))..))))))))) ( -23.86)
>mm5.chr11/71627014-71626910
AGCAAGUGGGCUAAAAAGCCAGCCUCCACCAACAGUCUAGCCCACACUACACACUUCUUUUCGCCAGUACCCAGCCUAUGCUUUUAGUAGGAAUCAGCAUAGGU
.....((((((((........................))))))))............................((((((((((((.....)))..))))))))) ( -23.76)
>rn3.chr10/74806909-74806804
AGCAAGUGGGCUAAAAAGCCAGCCUCCACCAACAGUCUAGCCCACACUACACACUUCCUUUCGCCAAUACCCAGCCUAUGCUUUUAGUAGGAAUCAGCAUAGGUA
.....((((((((........................))))))))............................((((((((((((.....)))..))))))))). ( -24.46)
>galGal2.chr13/4764022-4763912
AGAGGGUUAAAAACCUGAUCUCCACCAGGAUUUUAACCCAUCAGGAUGCUACAAGAAGCUCUGCAUGUGCUAAUGAACCCAGCCUAUGCUUCAGUGAUUCAGCAUAGGC
...(((((((((.((((........)))).))))))))).((((((.(((......))))))((....))...))).....(((((((((..(....)..))))))))) ( -36.90)
>consensus
AGCAAGUGGGCUAAAAAGCCAGCCUCCACCAACAGUCUAGCCC______ACACUACACA____UUUCCUUUCGCCAAUAA____CCCAGCCUAUGCUUUUAGUAGGAAUCAGCAUAGGU_
.....(..((((........))))..).............................................................((((((((((((.....)))..))))))))). (-17.86 = -17.30 +  -0.56)

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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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