Structure #182381

Summary

Genome/Assembly hg17
Chromosome/Contig chr8
Strand -
Position 117,112,775 - 117,112,882
Number of sequences 5
Organisms human, mouse, rat, dog, chicken
Mean pairwise identity 76.84
Columns 120
Mean single MFE -31.86
Consensus MFE -23.66
Combinations/base pair 40 / 29 = 1.38
SCI 0.74
z-score -3.05
RNA class probability 0.999188

This structure is part of cluster 101497

Alignment

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  76.84
 Mean single sequence MFE: -31.86
 Consensus MFE: -23.66
 Energy contribution: -22.94
 Covariance contribution:  -0.72
 Mean z-score:  -3.05
 Structure conservation index:   0.74
 SVM decision value:   3.42
 SVM RNA-class probability: 0.999188
 Prediction: RNA

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>hg17.chr8/117112882-117112775
AGUCUUUGUUCUUUUCAUGUUUCAUUGGUAGGCAUUAACAUAGACACUAUGAAGCUAGAGCUGGAAGUAAUGAAGUGAAAUUGUUCACAUCAUUACUUUAAAUUGAA
.((((.(((((((.(((........))).)))....)))).)))).......(((....))).((((((((((.(((((....))))).))))))))))........ ( -26.50)
>mm5.chr15/51241421-51241310
AGCCAUUGUUCUUCUCAUGUUUUGUCGGUAGACAUUAGCAUGGAUGCUGUGAACCCUAUUGGAGACAGAAGUAAUGGAGUGAAAUUGCUCACACCAUUACUUUAAAUUGAA
...(((.((...((.((((((.((((....))))..)))))))).)).)))........((....))((((((((((.((((......)))).))))))))))........ ( -34.00)
>rn3.chr7/87437111-87437001
AGCCAUUGUUCUUUUCAUGUUUUGUCGGUAGACAUUAACAUGGAUGCUGUGAACCUAUUGGAGACAGAAGUAAUGGAGUGAAAUUGCUCACACCAUUACUUUAAAUUGAA
..(((..((((..((((((((.((((....))))..))))))))......))))....))).....((((((((((.((((......)))).))))))))))........ ( -34.50)
>canFam1.chr13/18636252-18636142
AGCUUUUGUUCUUUUCAUGUUUUGUUGGUAGGCAUUAACAUGGACACCAUGAACAUAUUGAAGCUGGAAGUAAUGACAUGAAAUUGCUCACAUCAUUACUUUAAAUUGAA
(((((((((((..((((((((.((((....))))..))))))))......)))))....)))))).((((((((((..(((......)))..))))))))))........ ( -29.70)
>galGal2.chr2/13522115-13522234
GAAAAGCCUUAGUUUCUCCUUUUGUGUGUGUAGCUUGUAGGCAGUAAUGCAGACACAAUGAACUUAUUGGAGUUGGGAGUAAUGGUGUGAGAUUGCUCACAACAUUACUUUAGAUGAAA
......((..(((((......((((((.((((..(((....)))...)))).)))))).)))))....)).(((..((((((((.((((((....)))))).))))))))..))).... ( -34.60)
>consensus
____AGCCUUUGUUC_____UUUUCAUGUUUUGUUGGUAGGCAUUAACAUGGACACUAUGAACC_UAUUGGAGAUGGAAGUAAUGGAGUGAAAUUGCUCACACCAUUACUUUAAAUUGAA
...........((((.......((((((((..(((....)))...))))))))......)))).............((((((((((.((((......)))).))))))))))........ (-23.66 = -22.94 +  -0.72) 

	

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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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