Structure #148173

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr5
Strand	+
Position	89,198,326 - 89,198,445
Number of sequences	5
Organisms	human, mouse, rat, dog, chicken
Mean pairwise identity	78.39
Columns	120
Mean single MFE	-27.12
Consensus MFE	-18.26
Combinations/base pair	43 / 29 = 1.48
SCI	0.67
z-score	-1.77
RNA class probability	0.811372

This structure is part of cluster 82009

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  78.39
 Mean single sequence MFE: -27.12
 Consensus MFE: -18.26
 Energy contribution: -16.66
 Covariance contribution:  -1.60
 Mean z-score:  -1.77
 Structure conservation index:   0.67
 SVM decision value:   0.65
 SVM RNA-class probability: 0.811372
 Prediction: RNA

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>hg17.chr5/89198326-89198445
CUGGCCUAAUUCAAGGGCUCUCUGUCAAUCAUGGAAAAAUGUGACAGACUUGUGACUUUGUGGCAAAAGCAACAAAAUUUACAGUUUGAGAGAAUUACAUCAAUAACAAAAUAAUUUGU
...((((.......))))(((((.....(((((......)))))((((((.((((.(((((.((....)).)))))..)))))))))))))))............(((((....))))) ( -25.30)
>mm5.chr13/37405664-37405545
CUGGACUGGAUCAAGGGCUCUCUGUCAAUCAUAGAGAAAUGUGACAGACUUGUGACUUUGUGGCAAAAGUGACAAAAUUUACAGUUUGAGUGAGUCACAUCAAUAACAAAGUAAUUUGG
........(((....(((((.((.....(((((......)))))((((((.((((.(((((.((....)).)))))..)))))))))))).)))))..))).....((((....)))). ( -29.00)
>rn3.chr2/247627903-247627784
CUGGCCUGGAUCAAGGGCUCUCUGUCAAUCAUAGACAAAUGUGACAGACUUGUGACUUUGUGGCAAAAGUGACAAAAUUUACAGUUUGAAUGAGUCACAUCAAUAACAAAGUAAUUUGG
..(((((.......))))).(((((((..(((......))))))))))..((((((((.....((((.((((......))))..))))...)))))))).......((((....)))). ( -30.00)
>canFam1.chr3/73260443-73260324
CUGGCCUAAAUCAAGGGCUCUCUGUCAAUCACUGAGAAAUGUGACAGACUUGUAACUUUGUGGCAAAAGCGACAAAAUUUACAGUUUUAGAGAAUCACAUCAAUAACAAAAUAAUUUGU
...((((.......))))((((((((..((((........))))..)))((((((.(((((.((....)).)))))..))))))....)))))............(((((....))))) ( -27.50)
>galGal2.chrW/1173614-1173721
CUGGCUUCAGGCAAGAAUCCUUUGUCAAUCAUGGCAAAAACAUGAGCCACAUGAAAUUUCAUGAUGAAUGUGAUGAAACUUUCAGCACUAAUAACAAAAUUAUUUGG
.((((....((((((.....))))))..(((((.......)))))))))..(((((((((((.((....)).)))))).)))))..........((((....)))). ( -23.80)
>consensus
CUGGCCUAAAUCAAGGGCUCUCUGUCAAUCAUAG_AAAAAUGUGACAGACUUGUGACUUUGUGGCAAAAGUGACAAAAUUUACAGUUUGAGAGAAUCACAUCAAUAACAAAAUAAUUUGG
..(((((.......)))))....(((..(((((.......)))))..))).(((((.(((((.((....)).)))))..))))).......................((((....)))). (-18.26 = -16.66 +  -1.60) 

	

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Consensus structure

Secondary structure graph

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Montain plot

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Dotplot

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