Structure #140177

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr4
Strand	+
Position	129,762,742 - 129,762,816
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	81.53
Columns	74
Mean single MFE	-28.18
Consensus MFE	-27.58
Combinations/base pair	33 / 24 = 1.38
SCI	0.98
z-score	-3.5
RNA class probability	0.999419

This structure is part of cluster 77311

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 74
 Columns: 74
 Strand: +
 Mean pairwise identity:  81.53
 Mean single sequence MFE: -28.18
 Consensus MFE: -27.58
 Energy contribution: -26.20
 Covariance contribution:  -1.38
 Mean z-score:  -3.50
 Structure conservation index:   0.98
 SVM decision value:   3.59
 SVM RNA-class probability: 0.999419
 Prediction: RNA

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>hg17.chr4/129762742-129762816
AAGUCAUUGUGGGUUUGGCAUCCUGUUCAGCCUGGCUGGGGCCAGGGGAGCUGAACUGUAAUGACAAGCAGAUG
..(((((((..(.((..((.(((.......((((((....)))))))))))..)))..)))))))......... ( -30.71)
>mm5.chr3/41009081-41009155
AAGUCACUGUGGGUUUGGCAUCUUGUUCAGACCAAUGGGGUCCCAGGGAGCUGAACCCUAAUGACAUGCAGAUG
..((((.((.(((((..((..((((....((((.....)))).))))..))..))))))).))))......... ( -28.50)
>rn3.chr2/128162061-128162135
AAGUCACUGUGGUUUUGGCAUCUUGUUCAGACCAAUGGGGUCCCAGGGAGCUGAACCCUAAUGACAUGCAGAUG
..((((...((((((..((.....))..)))))).((((((..(((....))).)))))).))))......... ( -23.50)
>canFam1.chr19/41374245-41374171
AAGUCAUUGUGGGUUUAGCAUCCUAUUCAACCUAAUAAAGGUUAGAGGAGCUGAACUCUAAUGGCAUGCAGAUG
..(((((((.(((((((((.((((....(((((.....)))))..))))))))))))))))))))......... ( -30.00)
>consensus
AAGUCACUGUGGGUUUGGCAUCCUGUUCAGACCAAUGGGGGCCAAGGGAGCUGAACCCUAAUGACAUGCAGAUG
..(((((((.(((((((((.((((.....((((.....))))...))))))))))))))))))))......... (-27.58 = -26.20 +  -1.38) 

	

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Consensus structure

Secondary structure graph

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Montain plot

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Dotplot

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