Structure #152461

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr5
Strand	+
Position	141,212,032 - 141,212,145
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	86.47
Columns	120
Mean single MFE	-42.25
Consensus MFE	-32.04
Combinations/base pair	36 / 31 = 1.16
SCI	0.76
z-score	-1.37
RNA class probability	0.50471

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:  86.47
 Mean single sequence MFE: -42.25
 Consensus MFE: -32.04
 Energy contribution: -33.48
 Covariance contribution:   1.44
 Mean z-score:  -1.37
 Structure conservation index:   0.76
 SVM decision value:  -0.06
 SVM RNA-class probability: 0.504710
 Prediction: RNA

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

>hg17.chr5/141212032-141212145
UGGGGGUAAGGGGCAGAUAAAUAGGGUGAUUCUUCAGGCCCCUGGCUUUUCCGGGGUGGGGGUGGGGUCUCUGGGGUACAAGAGUCAAGACCCCAGCAGCACAGCUCCCAAAG
(((((((.((((((.((..(((......)))..))..))))))............(((..(.((((((((.(((..(....)..))))))))))).)..))).)))))))... ( -44.20)
>canFam1.chr2/37412964-37413076
UAGGGGCAAGGAGCAGAGAAUAGGGUGAUUCUUCAGGCCCCUAGCUUUCCCGAGGUGCAGUGGGGUCUCUGGGGUUACAGGAGUCAAGACCCCAGCAGCACAGCUCCCAAAG
..(((((..((((.((....((((((((....)))...))))).))))))....((((.((((((((((((......)))......)))))))).).)))).)).))).... ( -41.80)
>mm5.chr18/38630934-38631048
UAGGGGUAAGGAGGCAGAGAACAGGGUGAUUCUACAGCCCCUGGCUUUUCUGGGGGUGGGAGUGGGGUCUCUGGGGUUACAGGAGUCAAGACUCCAGCAGCACAGCUCCCAAAG
..(((((...(..((....(((.(((.((((((((.(((((..(.....)..)))))....)))))))))))...)))...(((((....))))).))..)...)).))).... ( -41.90)
>rn3.chr18/1721-1839
UGGGGGGAAAGGAGGAGGCAGAUAAUAGGGUGAUUCUACAGUCCCUGGCUUUUCUGGGGAUGGGAGUAGGGUCUCUGGGGUUACAGGAGUCAAGACUCCAGCAGCACAGCUCCCAAAG
..(((((...(...(..((.(((..((((..((((((((.(((((..(.....)..)))))....))))))))))))..)))...(((((....))))).))..).)..))))).... ( -41.10)
>consensus
UAGGGGUAAGG_____GGCAGA_GAAUAGGGUGAUUCUACA_GCCCCUGGCUUUUCC_GGGGUGGGAGUGGGGUCUCUGGGGUUACAGGAGUCAAGACCCCAGCAGCACAGCUCCCAAAG
(((((((.........................((((((((..((((((((.....))))))))....)))))))).((((((((...........)))))))).......)))))))... (-32.04 = -33.48 +   1.44)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]