Structure #74783

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr16
Strand	-
Position	31,943,983 - 31,944,092
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	78.98
Columns	120
Mean single MFE	-44.23
Consensus MFE	-32.75
Combinations/base pair	34 / 25 = 1.36
SCI	0.74
z-score	-3.84
RNA class probability	0.999888

This structure is part of cluster 39122

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  67.70
 Mean single sequence MFE: -44.23
 Consensus MFE: -32.75
 Energy contribution: -31.38
 Covariance contribution:  -1.38
 Mean z-score:  -3.84
 Structure conservation index:   0.74
 SVM decision value:   5.43
 SVM RNA-class probability: 0.999986
 Prediction: RNA

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

>hg17.chr16/31944092-31943983
UUUAAAAAAGAAAAAAGAAAACCACGGCACUCUUCCUGGCCACUGUUUUGGCGGGGGAGGGGACUGGGGGGGCGGGCAAGUCGGCCUGGCUUCUGUGGUCCCAGUGAAA
...........................((((((((((.((((......)))).))))))(((((((.((((((((((......)))).)))))).)))))))))))... ( -46.40)
>mm5.chr11/97181795-97181682
UUUAAAAAAGAAAAAAAAAAAAAGAAAACCACAGCACACUCUCCCUGGCCACUGUCUGGCAGGGGAGGGGCUGGGGACAGGCGUGUGGCCUGGUUUCUGUAGUCCCUGUGGAG
............................((((((......((((((.((((.....)))).))))))((((((.((((((((.....)))))...))).)))))))))))).. ( -45.70)
>rn3.chr10/86270770-86270656
UUUAAAAAAGAAAAAAAAAAAAAAGAAAACCACAGCACACUCUCCCUGGCCGCUGUCUGGCAAGGGAGGGGCUGGGGACAGGCGUAUGGCCUGGUGUCCAUAGUCCCCGUGAAG
..............................((((((...((((((((.((((.....)))).)))))))))))((((((((((.....))))((...))...)))))))))... ( -42.40)
>canFam1.chr9/37313111-37313229
UUUAAAAAAGAAAAAAAAAAAAAAGAAAACCACGGCGCUCUCUCCCUGGCCGCUGUUUUGGCAGCGGAGGGAGGCUAGAGGAUGGGCACAUCGGCCUGGCUUCUGUGGUCCAGUGAAA
............................((((((((.(((((((((((.(((......)))))).)))))))))))(((((..((((......))))..))))))))))......... ( -42.40)
>consensus
UUUAAAAAAGAAAAAAAAAAAAA_GAAAACCACAGCACACUCUCCCUGGCCACUGUCU_GGCAGGGGAGGGG__CUGGGGA__CAGGCAUAU_GGCCUGGCUUCUGUAGUCCCAGUGAAA
..............................(((......((((((((.(((........))).))))))))...(((.(((..(((((......)))))...))).))).....)))... (-32.75 = -31.38 +  -1.38)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]