Structure #102185

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr2
Strand	+
Position	65,297,527 - 65,297,642
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	81.05
Columns	120
Mean single MFE	-43.7
Consensus MFE	-39.22
Combinations/base pair	52 / 37 = 1.41
SCI	0.9
z-score	-2.11
RNA class probability	0.976555

This structure is part of cluster 53790

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  81.05
 Mean single sequence MFE: -43.70
 Consensus MFE: -39.22
 Energy contribution: -38.97
 Covariance contribution:  -0.25
 Mean z-score:  -2.11
 Structure conservation index:   0.90
 SVM decision value:   1.77
 SVM RNA-class probability: 0.976555
 Prediction: RNA

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

>hg17.chr2/65297527-65297642
GAGGCUUGGCUCCGGGUGCUGUUUUGGUGUGGGGCCAAGUAUACCUUUGGGCAGUGUUUUGCACUUCUGAGAGUGAAAUGACUCCUGUGGAGUCGGUCCUAAUCUGAGUGCAAAC
...((((((((((..(..((.....))..)))))))))))...((....))......(((((((((.....((.((..(((((((...))))))).)))).....))))))))). ( -40.90)
>mm5.chr18/35997212-35997326
AAGGGUCGGCUCCCAGCACUGUUUUGGUGUCUGGUGCUGAGUACUUUCAGGCAGUAUUGCAUCCCUGAGAGUGGAAUGACUCCUUGUGGAGUUGGUCCUGGUCUGGGUGCAAAC
...(.(((((..((((((((.....)))).)))).))))).)..............((((((((...(((.((((..((((((....))))))..))).).))))))))))).. ( -42.90)
>rn3.chr18/28207108-28207224
AAGGGUUGGCUCCAAGCACUGUUUUGGUGUUUGGUGCUGAGUACCUUCAGGCAGUGUAUUGCAUCCCUGAGAGUGGAAUGACUCCUUGUGGAGUUGGUCCUAGUCUAGGUGCGAAC
.....(..((.(((((((((.....))))))))).))..)(((((((((((..(((.....))).)))))((.((((..((((((....))))))..))).).)).)))))).... ( -48.40)
>canFam1.chr11/28125471-28125588
GAGGUCUGGCUCCGAGCACUGUUUUGGUGUUGCAGCUAAGUACUCUUGGGCAGCGUUUUGCACCUCUGAGAGUGGAAGAACUCCUCCUGUGGAGUUGGUCCUAGUCUGGGUGCAAAC
(((..((((((.(.((((((.....))))))).)))).))..)))...........(((((((((...(((.((((..((((((......))))))..))).).)))))))))))). ( -42.60)
>consensus
AAGGGUUGGCUCCGAGCACUGUUUUGGUGU_UGGUGCUAAGUA__CCUUCAGGCAGUGUUUUGCACCCCUGAGAGUGGAAUGACUCCU__UGUGGAGUUGGUCCUAGUCUGGGUGCAAAC
...(((((((((((.(((((.....))))).)))))))))))..................((((((((...(((.((((..((((((......))))))..))).).))))))))))).. (-39.22 = -38.97 +  -0.25) 

	

[Download RNAz result]

Consensus structure

Secondary structure graph

[PS | PDF]

Montain plot

[PS | PDF]

Dotplot

[PS | PDF]