Structure #99274

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr2
Strand	+
Position	29,920,070 - 29,920,155
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	81.37
Columns	85
Mean single MFE	-23.12
Consensus MFE	-20.11
Combinations/base pair	29 / 21 = 1.38
SCI	0.87
z-score	-3.07
RNA class probability	0.99874

This structure is part of cluster 52140

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 85
 Columns: 85
 Strand: +
 Mean pairwise identity:  81.37
 Mean single sequence MFE: -23.12
 Consensus MFE: -20.11
 Energy contribution: -19.30
 Covariance contribution:  -0.81
 Mean z-score:  -3.07
 Structure conservation index:   0.87
 SVM decision value:   3.21
 SVM RNA-class probability: 0.998740
 Prediction: RNA

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

>hg17.chr2/29920070-29920155
ACACAACCUUGCAUUAACAGAGGUGAGUUACAUGGGCAUAAGUCCAUGUGACUUGCAAAAAUGCGUAAAACAAGAAGCAAAGCAU
.........(((..........(..((((((((((((....))))))))))))..).....(((............)))..))). ( -27.60)
>mm5.chr17/70902967-70903051
ACACCGCCUUGCAUUAAGAGAGGAGAGUUACACGGGUAGGGGCUCAUGUGACUUGGAAAAUGUGUAAAACAAGAAGGAAGGCAU
.....(((((.(............((((((((.((((....)))).))))))))......(((.....)))....).))))).. ( -23.40)
>rn3.chr6/124492669-124492585
ACACCACCUUGCAUUAAGAGAGGAGAGUUACACAGGUAGGGGCUGAUGUGACUCGGAAAAAUGUGUAAAACAAGAAGGAGGCAU
...((.((((..............(((((((((((.......))).)))))))).......(((.....)))..)))).))... ( -20.10)
>canFam1.chr17/26412360-26412445
ACACAGCCUUGCACUAACAAAGGAGUGUUAUAUGGGUAUGAGUCCAUGUGAUAUGGGAAAAUGUGUAAAGCAAGAAGCAAAGCAU
.....((.((((((..........((((((((((((......))))))))))))........)))))).)).............. ( -21.37)
>consensus
ACACAACCUUGCAUUAACAGAGGAGAGUUACACGGGUAGGAGCCCAUGUGACUUGGAAAAAUGUGUAAAACAAGAAGCAAAGCAU
((((..((((.........)))).(((((((((((((....)))))))))))))........))))................... (-20.11 = -19.30 +  -0.81) 

	

[Download RNAz result]

Consensus structure

Secondary structure graph

[PS | PDF]

Montain plot

[PS | PDF]

Dotplot

[PS | PDF]