Structure #37519

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr11
Strand	+
Position	64,195,326 - 64,195,446
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	87.03
Columns	120
Mean single MFE	-32.78
Consensus MFE	-22.66
Combinations/base pair	28 / 27 = 1.04
SCI	0.69
z-score	-2.14
RNA class probability	0.800705

This structure is part of cluster 18443

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  87.03
 Mean single sequence MFE: -32.78
 Consensus MFE: -22.66
 Energy contribution: -24.73
 Covariance contribution:   2.06
 Mean z-score:  -2.14
 Structure conservation index:   0.69
 SVM decision value:   0.62
 SVM RNA-class probability: 0.800705
 Prediction: RNA

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

>hg17.chr11/64195326-64195446
UGGGUGGAAAGGAAGCCAAGGGUAGAGGGAAUGGAGGAAGGUCUCUGGGGAAGGCAAGGAGGGAGAUGACUUAGAUUAGUAAAACCCGACUGUUCCCUCAGACGAAUCAAAGUCCAGACA
.(..((((...((.(((...))).((((((((((......(((((....).)))).....(((.....(((......)))....)))..)))))))))).......))....))))..). ( -32.70)
>mm5.chr19/54430502-54430387
UGGGUGGAGAGGAAGUGGAGAUAGAGGGACUGGAGGAAGGUGUCUGGGGAAGGCAGGGAGGGAGGUGACUUAGAUUAGUAAACCCACUGUUCCCUCAGACAAAUCAGUCCAGACA
..........................(((((((.......((((((((((..((((...(((.....(((......)))...))).)))))))).))))))..)))))))..... ( -34.20)
>rn3.chr1/58710842-58710726
UGGGUAGGAGGAAGUGGAGAUAGAGGAACUGGAGGAAGGUGUCUGGGGAAGGCAGGGAGGGAGAUGACUUAGAUUAGUAAAACCCGACUGUUCCCUCAGACAAAUCAGUCCAGACA
............................(((((.((...((((((((((..((((...(((.....(((......)))....)))..)))))))).))))))..))..)))))... ( -35.70)
>canFam1.chr18/3341115-3340995
UGGGUAGAAAGGAAGCUGAGAGUAGGGGAAAUGGAGGACAGUCUCUGGGGAAGGCAAGGAGGGAGAUGACGGAGAUUAGUAAAACCCAACUGUUCCCUCCGACAAAUCAAAGUCCAGACA
..........(((.(((.....((((((...((.....)).)))))).....)))..((((((((.....((.............)).....))))))))............)))..... ( -28.52)
>consensus
UGGGUAGAAAGGAAGCGGA_GAUAGAGGAAAUGGAGGAAGGUCUCUGGGGAAGGCAAGGAGGGAGAUGACUUAGAUUAGUAAAACCCGACUGUUCCCUCAGACAAAUC__AGUCCAGACA
..............................(((((.((...((((((((((..((((...(((.....(((......)))....)))..)))))))).))))))..))....)))))... (-22.66 = -24.73 +   2.06)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]