Structure #48741

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr12
Strand	+
Position	56,504,659 - 56,504,744
Number of sequences	6
Organisms	human, dog, mouse, rat, chicken, zebrafish, fugu
Mean pairwise identity	70.55
Columns	91
Mean single MFE	-27.91
Consensus MFE	-17.04
Combinations/base pair	24 / 22 = 1.09
SCI	0.61
z-score	-3.33
RNA class probability	0.997841

This structure is part of cluster 24281

Alignment

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RNAz output

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

 Sequences: 6
 Slice: 1 to 91
 Columns: 91
 Strand: +
 Mean pairwise identity:  70.55
 Mean single sequence MFE: -27.91
 Consensus MFE: -17.04
 Energy contribution: -18.36
 Covariance contribution:   1.32
 Mean z-score:  -3.33
 Structure conservation index:   0.61
 SVM decision value:   2.94
 SVM RNA-class probability: 0.997841
 Prediction: RNA

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>hg17.chr12/56504659-56504744
GCUGCCUCCAGAAACAAGUAAUCAAGAAUAGGCCUCACAGAUGGAAACAGCCUAUCCUGGAUUACUUGAAUCCAGCCACAGCCUC
((((......((..(((((((((.((.((((((........((....)))))))).)).)))))))))..))......))))... ( -26.80)
>mm5.chr10/3516045-3515960
GCUGCCUCCAGAAACAAGUAAUCAAGAACAGGCCUCAUGGACGGACACAGCCUAUCCUGGAUUACUUGAAUCCAGCCGCAGCCUC
(((((..(..((..(((((((((.((...((((....((......))..))))...)).)))))))))..))..)..)))))... ( -25.10)
>rn3.chr9/39768897-39768819
CCGGCCCCCGAGCCAAGUAAUGGAGAACAGGCUGGCCAGCACCACAACCUAUCCUGAAUUACUUGAACUGGGUCCCGG
((((..((((...(((((((((((....(((.(((......)))...))).)))...))))))))...))))..)))) ( -26.40)
>galGal2.chr2/143556558-143556473
GCUGCCUCCCAGUGCAAGUAACCAAGAAUAGGCCAGCAGGAAUGGAUACAGCCUAUCCUGGAUUACUUGAACCAGGUGACAGCCU
((((.(.((..((.((((((((((.((.(((((.................))))))).))).))))))).))..)).).)))).. ( -27.53)
>danRer1.chr??/86-0
GCUGCAACCCAGUGCAAGUAACCAAGAACAGGCCAACCCUAGUCCACAAAGCCUAUCCUGGAUUACUUGAACCAGGUUGCAGCCAA
(((((((((..((.((((((((((.((..((((.................)))).)).))).))))))).))..)))))))))... ( -33.93)
>fr1.chrUn/122620534-122620618
GCCGCCUCCAAGAGCAAGUAAUCAAGCAUAGGCCAAGACAGAUACAGAGCCUAUCCUGGAUUACUUGAACCCGGUUGCAGCUAC
((.((..((.....(((((((((.((.(((((((............).)))))).)).))))))))).....))..)).))... ( -27.70)
>consensus
GCUGCCUCCAAAAGCAAGUAAUCAAGAACAGGCC_GCACAGAUGGACAC__AGCCUAUCCUGGAUUACUUGAACCCGGUCGCAGCCU____
(((((..((.....(((((((((.((...((((...................))))...)).))))))))).....))..)))))...... (-17.04 = -18.36 +   1.32) 

	

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Consensus structure

Secondary structure graph

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Montain plot

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Dotplot

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