Structure #116867

Summary

Genome/Assembly hg17
Chromosome/Contig chr20
Strand +
Position 21,196,806 - 21,196,922
Number of sequences 5
Organisms human, dog, mouse, rat, chicken
Mean pairwise identity 70.33
Columns 120
Mean single MFE -25.74
Consensus MFE -9.34
Combinations/base pair 42 / 28 = 1.50
SCI 0.36
z-score -1.91
RNA class probability 0.831492

This structure is part of cluster 61977

Alignment

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  70.33
 Mean single sequence MFE: -25.74
 Consensus MFE:  -9.34
 Energy contribution:  -8.34
 Covariance contribution:  -1.00
 Mean z-score:  -1.91
 Structure conservation index:   0.36
 SVM decision value:   0.72
 SVM RNA-class probability: 0.831492
 Prediction: RNA

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>hg17.chr20/21196806-21196922
AUGUGUAUUUCAAAAAUCACCUGGAAAUCUCCAGCUCCUUAAGGCGGCUCCCUUUAAAUCUUUUUGAAUGACAUGGUGUUGUCAAUUGCCUCCUUCUACUGACAUCUUCCAUGUCC
........((((((((....(((((....)))))....((((((.(....)))))))...)))))))).(((((((...(((((...............)))))....))))))). ( -27.76)
>canFam1.chr24/45560283-45560168
AUAUUUAUUUCGGAAUCAUCUGGAAAUCUCUGGCUCCUUAAGGUAGCUCCCUUUAAAUCUUUUUGAACGACAUGGUGUCGUCAUUUGCCUCACUGCGUCGAUGUUUUCCAUUUCC
...........((((.....((((((.....((((((....)).))))...((((((....))))))((((..((((..((.....))..))))..))))....)))))).)))) ( -24.30)
>mm5.chr2/146727942-146728057
AUAUUUGCUUCUAACGCAUCUGGAAAUCUCUGGCUCCUUGAGGUAGCUCCCUUUAAAUCUUUUUGAAAGACAUGGUGCCAUCAUGUACCUCCCUCUGCUGAUGUUUUCCAUUUCC
.....(((.......)))..((((((.(..((((.....(((((.......((((((....))))))..(((((((...)))))))))))).....))))..).))))))..... ( -24.00)
>rn3.chr3/135523124-135523239
AUAUUUGCUUCAAAAGCAUCUGGAAAUCUCUGGCUCCUUGAGGUAGCUCCCUUUAAGUCUUUUUGAAAGACACGGUGCCAUCGUGUACCUCCUUCUGCUGAUGUUUUCCAUUUCC
.....((((.....))))..((((((.(..((((.....((((((...........(((((.....)))))(((((...))))).)))))).....))))..).))))))..... ( -27.00)
>galGal2.chr3/105172010-105171902
AGUUUUAAGCUCUUUCUGAGUGAUUCUGGGUUCUUGAUGUCAGCCCACUUUAAAUCUCCUUGCAUGAUACAAGGCACCCAUCACUAGUCUCUGGUGCUUUUCAUUCCC
......((((.((.....(((((...((((((((((.(((((((.................)).)))))))))).)))))))))).......)).))))......... ( -25.63)
>consensus
AUAUUUGUUUCAAAAG_CAUCUGGAAAUCUCUGGCUCCUUGAGGU_AGCUCCCUUUAAAUCUUUUUGAAAGACAUGGUG___CCAUCAUUUGCCUCCCUCUGCUGAUGUUUUCCAUUUCC
........((((((......(((((....)))))....((((((........)))))).....)))))).((.((((......(((((...............)))))....)))).)). ( -9.34 =  -8.34 +  -1.00) 

	

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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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