Structure #152427

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr5
Strand	-
Position	141,211,716 - 141,211,833
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	82.84
Columns	120
Mean single MFE	-46.06
Consensus MFE	-35.22
Combinations/base pair	46 / 37 = 1.24
SCI	0.76
z-score	-1.74
RNA class probability	0.75312

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:  82.84
 Mean single sequence MFE: -46.05
 Consensus MFE: -35.22
 Energy contribution: -35.23
 Covariance contribution:   0.00
 Mean z-score:  -1.74
 Structure conservation index:   0.76
 SVM decision value:   0.48
 SVM RNA-class probability: 0.753120
 Prediction: RNA

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

>hg17.chr5/141211833-141211716
CCCUGCACAAAUGGGGCAGGUGCAAUAGUCUUGGAGUUGGUAGUAUUGGGUGCCCAGCUGGUGGAACAGUGGCCUCAAGGAUUGUCCUGGGUCCUGGAGGUCAGGAUUCGGGCAAGA
.(((((.(....)..)))))........(((((.......((((.(((((.(((..((((......))))))))))))..)))).(((((((((((.....)))))))))))))))) ( -42.50)
>canFam1.chr2/37412766-37412649
CCCCUGCACAAACAGGGCAGGUGCAAUAGUGGUAGAGUUGGUAACAUGAGGUGCCCAGCUGGUGGGGCAGUGGCCUCAAGGGCUGUCUGGGUCCUGGAGGUCAGGAUUCUGGCAAGA
.(((((......)))))..((.(((...(((.............)))....)))))((((..((((((....))))))..))))(((.((((((((.....)))))))).))).... ( -44.22)
>mm5.chr18/38630736-38630619
CCCUGCACAUAAGGGGCAGGUGCAAUAGUGGCAGAGCUGGUAGCAUGAGGUGCCCGGCUAGUGGGGCAGUGGCCUGGAGGGCUGUCCUGGGUCCUGAAGGCUAGGAUCUGGACAAAU
((((.((......(((((.((((..((((......))))...))))....)))))(((((.((...)).))))))).)))).(((((.((((((((.....)))))))))))))... ( -47.60)
>rn3.chr18/1527-1408
CCCUGCACAAAUGGGGCAGGUGCAAUAGUGGCAGAGCUGGUAGCAUUGAGGUGCCCGGCUAGUGGGGCAGUGGCCUGGGGGGGCUGUCCUGGGUCCUAAAGGUUAGGAUCAGGACAAAA
((((.((......((((((((((..((((......))))...)))))....)))))(((((.((...)).))))))).))))..((((((((.(((((.....)))))))))))))... ( -49.90)
>consensus
CCC_UGCACAAAUGGGGCAGGUGCAAUAGUGGCAGAGCUGGUAGCAUGA_GGUGCCCAGCUAGUGGGGCAGUGGCCUCAAGGG_CUGUCCUGGGUCCUGAAGGUCAGGAUCCGGACAAAA
(((.(((((...........)))))..........((((((..((((....))))))))))..((((((....)))))).)))..(((((.((((((((.....)))))))))))))... (-35.22 = -35.23 +   0.00)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]