Structure #176445

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr8
Strand	+
Position	10,576,065 - 10,576,182
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	78.65
Columns	120
Mean single MFE	-43.4
Consensus MFE	-28.15
Combinations/base pair	38 / 30 = 1.27
SCI	0.65
z-score	-1.98
RNA class probability	0.871884

This structure is part of cluster 98003

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  78.65
 Mean single sequence MFE: -43.40
 Consensus MFE: -28.15
 Energy contribution: -29.27
 Covariance contribution:   1.13
 Mean z-score:  -1.98
 Structure conservation index:   0.65
 SVM decision value:   0.87
 SVM RNA-class probability: 0.871884
 Prediction: RNA

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

>hg17.chr8/10576065-10576182
AGUCCGAUCAGGCCUUGGCGCAGGGAGGGAAGGUGGCCCUUUCUUCAAAAGCUUCAGCUGGCUCUGGCCUGGCAAACGCCUCUCCAGGACGUUCUGCUCUCCACACCAGGCCAGAAG
.((((....(((((..(((.....(((((((((....)))))))))...(((....))).)))..)))))(((....)))......)))).(((((..((.......))..))))). ( -43.40)
>mm5.chr14/61106813-61106696
UGCCCAAUCGAGCCCAGCUCUGGGAGGGAAAGGGCGGCCCUUUAUUCAAAAGCAUAAGCUGAUUCCAUCCUGGCAGAGGGCUCCCAGGAUCUUCUGGCCUCGAUUCCAGGCCAGAAG
...((....((((((..(((..((((((((((((...)))))).......(((....)))...))).)))..).)).))))))...))..((((((((((.......)))))))))) ( -47.30)
>rn3.chr15/66510704-66510587
UGCCCAAUCGAGCCCAGCACUGGGAGGGAAAGGGCGGCCCUUUAUUCAAAAGCAUAAGCUGAUUCCAUCCUGGCAAAGGGCUCCCAGGAUCUCCUGGCCUCGAUUCCAGGCCAGAAG
.(((.(((((((.((((..(((((((((((((((...)))).........(((....)))..)))).((((.....)))))))))))......)))).)))))))...)))...... ( -43.60)
>canFam1.chr25/24163157-24163038
GGCCCAAUCAGGCCUUUAUACCAGGAGGGAAAGAGCUGCUCUUUAUUCAAAAACAUAAGCUGAUUCUGUCCUGGCAAAUGGUUCACCAGGAUAUUCUGGUCUCAACCCCAGGCCAGAUG
((((......))))......((((((.((((..((((....(((......)))....))))..)))).))))))....(((....)))......((((((((.......)))))))).. ( -39.30)
>consensus
UGCCCAAUCAAGCC_CAGCACUGGGAGGGAAAGGGCGGCCCU_UUAUUCAAAAGCAUAAGCUGAUUCCAUCCUGGCAAAGGGCUC_CCAGGAUCUUCUGGCCUCGACUCCAGGCCAGAAG
...((....(((((......((((((.((((..(((.......................)))..)))).)))))).....)))))....))..((((((((((.......)))))))))) (-28.15 = -29.27 +   1.13)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]