Structure #19676

Summary

Genome/Assembly hg17
Chromosome/Contig chr1
Strand +
Position 189,758,070 - 189,758,202
Number of sequences 4
Organisms human, dog, mouse, rat
Mean pairwise identity 87.12
Columns 132
Mean single MFE -34.05
Consensus MFE -28.8
Combinations/base pair 36 / 31 = 1.16
SCI 0.85
z-score -1.42
RNA class probability 0.57338

This structure is part of cluster 8537

Alignment

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 132
 Columns: 132
 Strand: +
 Mean pairwise identity:  87.12
 Mean single sequence MFE: -34.05
 Consensus MFE: -28.80
 Energy contribution: -29.55
 Covariance contribution:   0.75
 Mean z-score:  -1.42
 Structure conservation index:   0.85
 SVM decision value:   0.08
 SVM RNA-class probability: 0.573380
 Prediction: RNA

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>hg17.chr1/189758070-189758202
UGUAGGAGUAAUAUACUACCACUCAACCUCUACUGUAAGGUUGGCAGCCCUGAGAACUCCUUUUUUAAUUUAGCGUGUUAUGGAUGUAUUUCUGCUCCCAAAGGAAUGAAGAGCAGACAUUACCACAUGCAA
...((((((.............(((((((........)))))))((....))...))))))...........((((((....((((....(((((((.((......))..)))))))))))...)))))).. ( -32.60)
>canFam1.chr??/131-0
UGUAGGAGAAAUAUACUACUACUCAACCUCUACUGUAAGGCUGGUAGCCCUGAGAACUCCUUUUUUAAUGUAGCAUGUAAUGGAUGUAUUCUUGCUCCCCAAAGAAUGAGGAGCAGACUUUUCCACAUGCA
...(((((..........((((.((.(((........))).)))))).........)))))...........((((((...(((.....(((.(((((.((.....)).))))))))....))))))))). ( -33.81)
>mm5.chr1/51524722-51524590
UGUAGGAGAAAUAUACUACUACUCAACCUCUACUGUAAGGUUGGCAGCCCUGAGAACUCCUCUUUUAGUGUAGCAUGUUCUGGAUGCAUUCCUGCUCCAAAUAGAAUGAGGAGAAGGUAUUUCCACAUGCAA
(((((..(((((((........(((((((........)))))))............(((((((((((.((.((((......(((.....))))))).))..))))).))))))...)))))))..).)))). ( -33.70)
>rn3.chr13/53727376-53727244
UGUAGGAGAAAUAUACUACCACCCAACCUCUACUAGAAGGCUGGCAGCCCUGAGAACUCCUCUUUUAGUGUAGCAUGUUCUGGAUACAUUCCUACUCCAAAGAGAAUGGGGAGAAGGUAUUUCCACAUGCAA
(((((..(((((((.((.(..((((..((((((((((((((.....)))..(((.....))))))))))((((.((((.......))))..)))).....))))..))))..).)))))))))..).)))). ( -36.10)
>consensus
UGUAGGAGAAAUAUACUACCACUCAACCUCUACUGUAAGGCUGGCAGCCCUGAGAACUCCUCUUUUAAUGUAGCAUGUUAUGGAUGCAUUCCUGCUCCAAAAAGAAUGAGGAGAAGACAUUUCCACAUGCAA
...(((((..............(((((((........)))))))((....))....)))))...........((((((...(((......((((((((...........))))))))....))))))))).. (-28.80 = -29.55 +   0.75) 

	

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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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