Structure #155086

Summary

Genome/Assembly hg17
Chromosome/Contig chr5
Strand +
Position 168,127,712 - 168,127,813
Number of sequences 6
Organisms human, dog, mouse, rat, chicken, fugu
Mean pairwise identity 74.42
Columns 120
Mean single MFE -40.88
Consensus MFE -27.88
Combinations/base pair 32 / 27 = 1.19
SCI 0.68
z-score -1.89
RNA class probability 0.975755

This structure is part of cluster 85871

Alignment

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 6
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  74.42
 Mean single sequence MFE: -40.88
 Consensus MFE: -27.88
 Energy contribution: -29.22
 Covariance contribution:   1.34
 Mean z-score:  -1.89
 Structure conservation index:   0.68
 SVM decision value:   1.76
 SVM RNA-class probability: 0.975755
 Prediction: RNA

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

>hg17.chr5/168127712-168127813
CGGUGGCGGGCCAUGCUGCAGGAGAGCACGGUGCUUUCCGCGGUGCUUGACAGAACCAUGUUCCGUUUCCAUCGUUCCACCACAUGGUUAGAUCAAGCACA
(((..(((.....)))..).(((((((.....))))))).))((((((((...((((((((....................))))))))...)))))))). ( -39.35)
>canFam1.chr4/45152422-45152321
UGGUGGCGGGCCAUGCUGCAGGAGAGCGCGGUGCUUUCCGCGGUGCUUGACAGAACCAUGUUCCGUUUCCAUCGUUCCACCACAUGGUUAGAUCAAGCACA
..((((....))))(((((.(((((((.....))))))))))))((((((...((((((((....................))))))))...))))))... ( -38.25)
>mm5.chr11/86351089-86350970
UGGUGGUGGCGGCGGCGGUGGCAGCAGGCCAUGCUGCAGGAGAGAGCGAUGCUUUCCGCGGUGCUUGACAGAACCAUGUUCCGUUUCCAUCGUUCCACCACAUGGUUAGAUCAAGCACA
........(((((((((.((((.....))))))))))....((((((...))))))))).((((((((...((((((((....................))))))))...)))))))). ( -46.55)
>rn3.chr10/90244847-90244737
UGGCGGCGGCGGCGGUGGGCCAUGCUGCAGGAGAGAGCGAUGCUUUCCGCGGUGCUUGACAGAACCAUGUUCCGUUUCCAUCGUUCCACCACAUGGUUAGAUCAAGCACA
..((((((..(((.....))).)))))).((((((.......))))))...((((((((...((((((((....................))))))))...)))))))). ( -43.05)
>galGal2.chr13/4990662-4990758
GCAUGCCAUGCGGCAGGGAGUAUGCAGCCUUCCAUGGUGCUUGACAGAACCAUGUUCAAUUUGUAUUGUUCUACCACAUGGUUAGAUCAAGCACA
...((((....))))(((((........)))))...((((((((...((((((((.((((....)))).......))))))))...)))))))). ( -33.30)
>fr1.chrUn/115040975-115041074
GCUGGGAGGGGCAGGUGGGUGUGUGCUCAGCGGUCCCUGGCGCUUGACGGAACCAUGUGAUGUCACAAUAGGCGGGGCCACAUGGUUAGAUCAAGCACA
(((...((((((.(.(((((....))))).).)))))))))((((((...(((((((((.((((......))))....)))))))))...))))))... ( -44.80)
>consensus
UGGUG__________________GCGGGCCAUGCUGCAGGAGAGAGCGAUGCUUUCCGCGGUGCUUGACAGAACCAUGUUCCGUUUCCAUC_GUUCCACCACAUGGUUAGAUCAAGCACA
.......................((((......)))).(((((((.....)))))))...((((((((...((((((((.....................))))))))...)))))))). (-27.88 = -29.22 +   1.34) 

	

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]