Structure #158715

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr6
Strand	+
Position	35,568,172 - 35,568,290
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	70.44
Columns	120
Mean single MFE	-47.7
Consensus MFE	-26.46
Combinations/base pair	38 / 28 = 1.36
SCI	0.55
z-score	-1.84
RNA class probability	0.90524

This structure is part of cluster 87908

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  70.44
 Mean single sequence MFE: -47.70
 Consensus MFE: -26.46
 Energy contribution: -26.15
 Covariance contribution:  -0.31
 Mean z-score:  -1.84
 Structure conservation index:   0.55
 SVM decision value:   1.04
 SVM RNA-class probability: 0.905240
 Prediction: RNA

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>hg17.chr6/35568172-35568290
AGCAAGUAGGGAUGUAUCUGUCUCCCCCACCUCCAGCCCAAGGACCCCGGAGGGACCCUGCCAAGCAGCCACACCCUGCCAGGCUGGGGAGGGCUUCCCUCCUUCCUGGAACAGGGUC
.((..((((((...........((((((...(((.......)))....)).))))))))))...))......(((((((((((..((((((((...)))))))))))))..)))))). ( -48.30)
>canFam1.chr12/7549657-7549768
GCAGGAGGGGGAUGGUGUCUGCCUCCAGCACAAGGACCCCUGAGGGACCCUGCCAAGUGGCCACACCCUGCCAGGCUGGGGAGGGAGUACCCUCCUCCCUGGAGCAGGGUA
((.(((((.((((...)))).))))).))...(((..(((...)))..)))(((....)))...(((((((((((..((((((((....))))))))))))..))))))). ( -57.70)
>mm5.chr17/26935380-26935488
AGGGGGUGGGGAUGCUGUAUGUCUCCCCCAUCUCCAGUCAACGGACCCAGGAGGGACCUGCCAAGUAGCCACACCCUGCCAUGCAGGGGAGGGAGGACCCUCUCCCUU
.((((((((((..((.....))...)))))))))).(((....)))...((((((.(((.((..((....)).((((((...))))))..)).))).))))))..... ( -49.40)
>rn3.chr20/6587040-6587139
AGGGGGUAGAGAUGUUUUAUGCCUCCAGUCUAAGGACCCAGAAGGGACCUGCCAAGUAGCCACACCCUGCCGUGCUGGGGUGGGAGGACCCUCUCCCUU
.(((((.((((..........(((((......(((.(((....))).)))............((((((((...)).)))))))))))...))))))))) ( -35.42)
>consensus
AGGGGGUAGGGAUG_UGUAUG_________CCUCCAGCCCAAGGACCCAGGAGGGA_CCUGCCAAGUAGCCACACCCUGCCAGGCUGGGGAGGGAGG_ACCCCCUCCCUG__________
.(((((.((((....................(((((((...(((.(((....)))...((((...))))......))).....))))))).((......))))))))))).......... (-26.46 = -26.15 +  -0.31)

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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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