Structure #74843

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr16
Strand	-
Position	33,595,088 - 33,595,198
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	77.97
Columns	120
Mean single MFE	-34.15
Consensus MFE	-18.2
Combinations/base pair	25 / 22 = 1.14
SCI	0.53
z-score	-2.04
RNA class probability	0.583681

This structure is part of cluster 39159

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  66.24
 Mean single sequence MFE: -34.15
 Consensus MFE: -18.20
 Energy contribution: -20.45
 Covariance contribution:   2.25
 Mean z-score:  -2.04
 Structure conservation index:   0.53
 SVM decision value:   2.06
 SVM RNA-class probability: 0.986865
 Prediction: RNA

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

>hg17.chr16/33595198-33595088
UCACUGGGACCACAGAAGCCAGGCAGACGUGCCCGCCCCCCCCAGCCCCCCUCCCCCACCAAAACAGUGGCCAGGAAGAGUGCCGUGGUUUACUUUUUUCUUUUUUAAAU
......(((((((....((..((((....)))).))........((.(.(.(((.((((.......))))...))).).).)).)))))))................... ( -23.40)
>mm5.chr11/24467061-24467173
CCACAGGGACUACAGAAACCAGGCCACACGCCUGUCCCCAGCCCCUCCCCUGCCAGACAGUGGCCAGGGAGAGUGUGCUGUGGUUUUCUUUUUUUUUUUUUCUUUUUUAAAU
((((.(((((....(....)((((.....))))))))).((((.(((((((((((.....))).))))).))).).)))))))............................. ( -35.90)
>rn3.chr10/24462581-24462694
UCACGGGGACUAUGGACACCAGGCCAUACGCCUGUCCCCAGCCCCUCCCUUGCCAGACAGCGGCCAGGGAGAGUGUGCUGUGGUUUUCUUUUUUUUUUUUUUCUUUUUUAAAU
....(..(((((((((((((((((.....)))))..........((((((.(((.......))).)))))).)))).))))))))..)......................... ( -39.20)
>canFam1.chr9/16329705-16329588
UCACUGGACCACAGAAGCCAGGCCGAUGUGCCCAUCCUCUAGCCUCCCUCCGCUGCCAAAACAGCGGCCAGGGAGAGAGCGCCGUGGUUUUCUUUUUUUUUUUUUUCUUUUUUAAAU
...(((.....)))(((((((((.((((....))))((((...((((((((((((......))))))..)))))))))).))).))))))........................... ( -38.10)
>consensus
UCACUGGGACCACAGAAACCAGGCC_ACACGCCCG___CCCCCAGCCCC__UCCCCUGCCAAA_CAGCGGCCAGGGAGAGUGUGCCGUGGUUUUCUUUUUUU_UUUUUUCUUUUUUAAAU
......(((((((((....(((((......)))))...............(((((..(((........)))..)))))......)))))))))........................... (-18.20 = -20.45 +   2.25)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]