Structure #166470

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr7
Strand	+
Position	58,112 - 58,231
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	83.19
Columns	120
Mean single MFE	-49.32
Consensus MFE	-33.38
Combinations/base pair	44 / 34 = 1.29
SCI	0.68
z-score	-1.88
RNA class probability	0.756831

This structure is part of cluster 92361

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  83.19
 Mean single sequence MFE: -49.32
 Consensus MFE: -33.38
 Energy contribution: -33.31
 Covariance contribution:  -0.06
 Mean z-score:  -1.88
 Structure conservation index:   0.68
 SVM decision value:   0.49
 SVM RNA-class probability: 0.756831
 Prediction: RNA

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

>hg17.chr7/58112-58231
UUCAAAGCCCAGGAGUCUGGUCAACGCAGCAGAGCGGGCCCCCUACGGCCCCAAUCCCUGGGGAUGGGGGCCCAGGGACACCUUCCAAGGUGGCCUGUUUCCUCCCAAUGGAUCCUGCC
......(.((((....)))).)......(((((((((((.((((..((((((.((((....)))).)))))).)))).(((((....))))))))))))(((.......)))..)))). ( -54.50)
>canFam1.chr1/579-459
UUCAAGGCCCAGGAGUCAGGCCAGGGCAGCACAGCAGGCCCACUACGGCCCCCACCCCCUGGGGCUGGGGGCCCAGUGACACCUUCCAAGGCCACCCGGUUCCUUCCAACGGAUCCUGCG
.....((((..((((...((((...((......)).))))((((..(((((((((((....))).)))))))).)))).....))))..))))....((.(((.......))).)).... ( -55.60)
>mm5.chr7/453-573
UUUAAGACCCAGGAGUCUGGUCAGGGCAGCACAGCGGUGCCACUACGGCCCCCACCCCCUGGAGCCGGGGGCCCAGCAACACCUUCCAAGGCCACUCGGUUUCCUCCUACGGAUUCUGCC
...........((((((((..(((((..((...))((.(((.....))))).....)))))((((((((((((................)))).)))))))).......))))))))... ( -41.69)
>rn3.chr1/453-573
UUUAAAACGCAGGAGUCUGGUCAGGGCAGCACAGCGGUGCCACUACGGCCCCCACCUCCUGGAGCUGGGGGCCCAACAACACCUUCCAAGGCCACUCGGUUUCUUCCUACGGAUUCUGCC
........((((.(((((((((((((((.(.....).)))).))..((((((((.(((...))).))))))))................))))....((......))...))))))))). ( -45.50)
>consensus
UUCAAAACCCAGGAGUCUGGUCAGGGCAGCACAGCGGGCCCACUACGGCCCCCACCCCCUGGAGCUGGGGGCCCAGCAACACCUUCCAAGGCCACCCGGUUCCUUCCAACGGAUCCUGCC
.........(((((.((((...((((..((...))((((((.....))))))....))))(((((((((((((................)))).)))))))))......))))))))).. (-33.38 = -33.31 +  -0.06)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]