Structure #60821

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr14
Strand	+
Position	53,419,155 - 53,419,273
Number of sequences	5
Organisms	human, mouse, rat, dog, chicken
Mean pairwise identity	76.85
Columns	120
Mean single MFE	-29.66
Consensus MFE	-18.03
Combinations/base pair	26 / 22 = 1.18
SCI	0.61
z-score	-1.7
RNA class probability	0.680907

This structure is part of cluster 31319

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  76.85
 Mean single sequence MFE: -29.66
 Consensus MFE: -18.03
 Energy contribution: -18.43
 Covariance contribution:   0.40
 Mean z-score:  -1.70
 Structure conservation index:   0.61
 SVM decision value:   0.31
 SVM RNA-class probability: 0.680907
 Prediction: RNA

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>hg17.chr14/53419155-53419273
AAACAGAUAGAUACUGUACAUCAAACUUGUUCUCACAGGUGUGCUUUCUUAAUGUUAAAAUACCCGUGUGAAUUUUUAGUUUCCCAUAAUGUAAUGGGAGACAAUAAAUUCUGAAGUU
..((((.......))))......(((((((((.(((.(((((.....(.....).....))))).))).)))).....(((((((((......)))))))))...........))))) ( -28.90)
>mm5.chr14/38971386-38971504
AAACAGAUAGAUACUGUACAUCACACUUGUUCUCAUGGGUGCACUUUCUUAAUGCCAAAAUACCCGUGUGACUUCUCUGUCUCCCAUCAUGUAACGGGAGACAAUACAUUCUGAAGUU
.......((((...((((..((((((.((....)).(((((((.........)))......))))))))))......((((((((..........)))))))).)))).))))..... ( -28.50)
>rn3.chr15/22221298-22221408
AAACAGAUCGAUACUGUACAUCAAACUUGUUCUCGUGGGUGCACUGUCUUAACGCCGUGUGACUUCUCCGUCCCCCAUCGUGUUAACGGGAGACAAUACAUUCUGGAGCU
..((((.......))))...........(((((...(((((...(((((((((((.(((.(((......)))...))).))))).....))))))...))))).))))). ( -23.40)
>canFam1.chr8/32834491-32834609
AAACAGAUACAUACUGUACAUCAAACUUGUUCUCACAGGUGUGCUUUCUUAACGUUAAAAUACCCGUGUGAAUUUUUAGUUUCCCAUAAUGUAAUGGGAGACAAUAAAUUCUGAAGUU
..((((.......))))......(((((((((.(((.(((((.....(.....).....))))).))).)))).....(((((((((......)))))))))...........))))) ( -28.30)
>galGal2.chr5/55219149-55219260
AAGCAGAUAUACAACGGCCGGGUUCCCACAGGUGCGCUCCUCGCUGUGGGAUAUACCCGUGUGAAUUUGCUGUUUCCCAUCGUGUCAGGGGAAACAAUGAAUUCUGAGGUU
.(((((((.((((.....((((((((((((((.(.....).).))))))))...))))))))).)))))))(((((((..........)))))))................ ( -39.20)
>consensus
AAACAGAUAGAUACUGUACAUCAAACUUGUUCUCACAGGUGCGCUUUCUUAAUGUUAAA_AUACCCGUGUGAAUUUUCAGUUUCCCAUCAUG_UAACGGGAGACAAUAAAUUCUGAAGUU
...((((.....................((((.(((.((((....................)))).))).)))).....(((((((...........))))))).......))))..... (-18.03 = -18.43 +   0.40) 

	

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Consensus structure

Secondary structure graph

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Montain plot

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Dotplot

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