Structure #162009

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr6
Strand	-
Position	91,142,625 - 91,142,738
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	72.99
Columns	120
Mean single MFE	-28.35
Consensus MFE	-12.81
Combinations/base pair	36 / 24 = 1.50
SCI	0.45
z-score	-2.09
RNA class probability	0.555579

This structure is part of cluster 89785

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  72.99
 Mean single sequence MFE: -28.35
 Consensus MFE: -12.81
 Energy contribution: -12.12
 Covariance contribution:  -0.69
 Mean z-score:  -2.09
 Structure conservation index:   0.45
 SVM decision value:   0.04
 SVM RNA-class probability: 0.555579
 Prediction: RNA

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>hg17.chr6/91142738-91142625
GCAAAGACCAAUUGGUGGUUCGCCUUUUUAGUAAAUUCCAAGAUUCUGGAGUCAUUUAAGUCCAAAGGGGAAAUUUGUGAGACUGGGGGAAGGGGAAGUAGUGAGAAAAUAGA
((...(((((.....))))).)).((((((.((..((((....(((..(..((((.....(((.....))).....))))..)..)))....))))..)).))))))...... ( -25.50)
>mm5.chr4/121739687-121739792
GCAAAGACCAACACUUUAGUGAAUUCCAAAUCCUGAAGUCACACGAGUCCAAAGAGGGAAGUCGUGAGAGUCAGGAGAGGGGGCAGGAGGCCGUGAAAAAAUAGA
...........(((...........((...((((((..((.(((((.(((......)))..))))).)).))))))...))(((.....)))))).......... ( -31.70)
>rn3.chr5/124638537-124638644
GCAAAGACCAACUUUUUAGUGAAUUCCAAAUCUUGGAGUCACCCGAGUCCAAAGAGGGAAGUCGUGAGAGUCAGGAGAGGGGGGCAGGAGGUAGUGAAAAAAAUAGA
.....(.((..((((((..(((.((((...(((((((.((....)).))).)))).)))).((....)).))).))))))..)))...................... ( -27.00)
>canFam1.chr12/52464133-52464020
GCAAAGACCAACUGGUGGCUCACCUUUUUAGUGAAUUUCAAAAAUCUGGAGUCAUUUGAGUCCAAAGGGGAAACAUGUGAGAGAAGGGGGUGGGGGAGCGGUGAGAAAAUAGA
.......(..((((.(..(((((((((((......(((((......((((.((....)).))))....(....)...))))).)))))))))))..).))))..)........ ( -29.20)
>consensus
GCAAAGACCAA____________CUUUUUAGUGAAUUCCAA_AUCCUGGAGUCACUCGAGUCCAAAGAGGAAAGUCGUGAGAGUCAGGAGAGGGG______AAGCAGUGAAAAAA_UAGA
........................((((((.((...(((....((((((..((((.....(((.....))).....))))...))))))...))).........)).))))))....... (-12.81 = -12.12 +  -0.69)

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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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