Structure #152318

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr5
Strand	-
Position	141,210,865 - 141,210,985
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	86.01
Columns	120
Mean single MFE	-52
Consensus MFE	-44.49
Combinations/base pair	45 / 38 = 1.18
SCI	0.86
z-score	-3.22
RNA class probability	0.996786

This structure is part of cluster 84280

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  86.01
 Mean single sequence MFE: -52.00
 Consensus MFE: -44.49
 Energy contribution: -43.68
 Covariance contribution:  -0.81
 Mean z-score:  -3.22
 Structure conservation index:   0.86
 SVM decision value:   2.75
 SVM RNA-class probability: 0.996786
 Prediction: RNA

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

>hg17.chr5/141210985-141210865
GGGGAGCCUGUUUUCCUCCCAGGGUUCCUGGGAGUACUUAAGGCAAGUCAGUUUCGGGCCAUCUCUCUUCCCAGGGAAGGGGGCUAUCUCUGAAACACGUCUGGGAAGGGAUGUUUCUGG
.((((((((......((((((((...))))))))......))))......((((((((....(((((((((...))))))))).....))))))))((((((......)))))))))).. ( -46.50)
>canFam1.chr2/37411916-37411796
GGGGAGCCUGUUUUCCUCCCAGGGUUCCUGGGAGUACUUAAGGCAUGUCAGUCUUGGGCCAUCUCUCUUCCCAGGGAAGGGGGCUAUCUCUGAAGCAUGUCUGGGAAGGGAUAUUCCUGA
.((((((((......((((((((...))))))))......))))(((((..(((..(((....((((((((...))))))))(((........)))..)))..)))...))))))))).. ( -49.40)
>mm5.chr18/38629875-38629759
GGGGAGCCUGUUUGCCUCCCAGGGUUCCUGGGAGUACCUAAGACAAGUCAGUCUUGGGCCGGCUCUCUUUCCAGGCAAGAGUUGUCUCUGAAGCUCUCUGGAAGAGAAGUCUCUG
((((((((.......((((((((...))))))))..((((((((......))))))))..)))))))).(((((...((((((........)))))))))))((((....)))). ( -54.00)
>rn3.chr18/673-557
GGGGAGCCUGUUUGCCUCCCAGGGUUCCUGGGAGUACCUAAGACAAGUCAGUCUUGGGCCGGCUCUCUUUCCAGGCAAGAGCUGUCUCUGAAGCUCCCUGGAAGAGAAGUCUCUG
((((((((.......((((((((...))))))))..((((((((......))))))))..)))))))).((((((...(((((........)))))))))))((((....)))). ( -58.10)
>consensus
GGGGAGCCUGUUUGCCUCCCAGGGUUCCUGGGAGUACCUAAGACAAGUCAGUCUUGGGCCAGCUCUCUUCCCAGGCAAGAG__CUAUCUCUGAAGCAC_UCUGG_AAGAGAAGUCUCUG_
(((((((((......((((((((...)))))))).....(((((......)))))))))....((((((((((((..((((......))))........))))))))))))..))))).. (-44.49 = -43.68 +  -0.81)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]