Structure #49260

Summary

Genome/Assembly hg17
Chromosome/Contig chr12
Strand +
Position 66,338,987 - 66,339,105
Number of sequences 5
Organisms human, dog, mouse, rat, chicken
Mean pairwise identity 82.83
Columns 120
Mean single MFE -36.77
Consensus MFE -30.57
Combinations/base pair 39 / 28 = 1.39
SCI 0.83
z-score -3.26
RNA class probability 0.998652

This structure is part of cluster 24582

Alignment

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  82.83
 Mean single sequence MFE: -36.77
 Consensus MFE: -30.57
 Energy contribution: -29.89
 Covariance contribution:  -0.68
 Mean z-score:  -3.26
 Structure conservation index:   0.83
 SVM decision value:   3.17
 SVM RNA-class probability: 0.998652
 Prediction: RNA

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>hg17.chr12/66338987-66339105
GUACAAUGAGCCUUACUGUAUUUAGUGUGGCAGAAUAAUAACAUCAGUGGCAGGCCACUGAUUACUUCAUGACUGCCACGCAUUUACAGAUUGGUGUCAAAGACAUUCACUAUGUUUU
......((((((...(((((..(.(((((((((.........((((((((....))))))))..........))))))))))..)))))...))).)))(((((((.....))))))) ( -41.81)
>canFam1.chr10/13065471-13065588
GUAUGAUGAGCCUUACUGUAUCUAGUGUGGCAGAGUAAUAAACAUCAGUGGCAGGCCAUUGAUUACUUCAUGACUGCUGCGCAUUUACAGAUUGGUGUCAAAGACAUUCACUGUUUU
...((((..(((...(((((....(((..((((..........((((((((....))))))))..........))))..)))...)))))...)))))))((((((.....)))))) ( -35.55)
>mm5.chr10/12083342-12083227
GUACGAUGAGCCUUACUGUAUUUAGUGUGGCAGAGAAAUCACAUUGGUGGCAGGCCAUUGAUUCUUCAUGACUGUCACACAUUUACAGAUUGGUCAAACACAUUCACUCUGUUUU
...(((((.(((.(((((....))))).))).((....)).)))))(((((((..(((.((....))))).)))))))......(((((.(((..........))).)))))... ( -33.90)
>rn3.chr7/84944455-84944340
AUACGAUGAGCCUUACUGUAUUUAGUGUGGCAGAGUAAUCACAUCGGUGGCAGGCCAUUGAUUCUUCAUGACUGCCACACAUUUACAGAUUGGUCAAACUCAUUCACUCUGUUUU
...(((((.(((.(((((....))))).))).((....)).)))))(((((((..(((.((....))))).)))))))......(((((.(((..........))).)))))... ( -38.20)
>galGal2.chr1/31820794-31820913
GUACAAAUAGCCUUACUGUAACUAGUGUGACACAGUAAUAAACAUCAGUGGCUGGCCACUGGUUACAACGUGACUGUCAUGCAUUGCAGCGUGGUGUCAAAGGUAUUACCUUUCUCUUC
.........(((((..(((((((((((.(...((((.....((....)).)))).))))))))))))...((((...(((((......)))))..)))))))))............... ( -34.40)
>consensus
GUACGAUGAGCCUUACUGUAUUUAGUGUGGCAGAGUAAU_AACAUCAGUGGCAGGCCAUUGAUUACUUCAUGACUGCCACGCAUUUACAGAUUGGUGUCAAAGACAUUCACUCUGU_UUU
......((((((...(((((....(((((((((..........((((((((....))))))))..........)))))))))...)))))...))).))).................... (-30.57 = -29.89 +  -0.68) 

	

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Consensus structure

Secondary structure graph

Secondary structure

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Montain plot

Secondary structure

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Dotplot

Secondary structure

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