Structure #158496

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr6
Strand	+
Position	33,440,687 - 33,440,806
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	71.25
Columns	120
Mean single MFE	-61.45
Consensus MFE	-34.7
Combinations/base pair	37 / 33 = 1.12
SCI	0.56
z-score	-3.11
RNA class probability	0.999876

This structure is part of cluster 87789

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  71.25
 Mean single sequence MFE: -61.45
 Consensus MFE: -34.70
 Energy contribution: -37.82
 Covariance contribution:   3.12
 Mean z-score:  -3.11
 Structure conservation index:   0.56
 SVM decision value:   4.34
 SVM RNA-class probability: 0.999876
 Prediction: RNA

######################################################################

>hg17.chr6/33440687-33440806
GGGAAGGAGGGUAACGGGGAGGCAGGGCCCAGCCCCCCAGUGUGGGGAAACAGCUGAGGGAAGGCCCCCCUCAAAAGGCUCCACCUCCUCACCAGCACUCCUGCCCAGGGACAGGGAGC
(((.(((((.((...(((((((..(((((.....((((.....)))).......((((((.......))))))...)))))..)))))))....)).))))).)))............. ( -52.90)
>canFam1.chr2/76373365-76373478
GGGAGCUGGGGGGGAGGGGGAGGCAGGGCCCACCCCCACGUUGGAGAGGCUGAGGGAAGGCCCCCCUGGAAGGACUGCCCCCUCCCCAACACCCCUGCCGAGGGACAGGUAGC
(((...((..((((((((((((...(((((..(((.((.(((.....))))).)))..))))).((.....)).)).))))))))))..)))))(((((........))))). ( -57.80)
>mm5.chr4/134426443-134426551
AGGAAGGGCCAUGGGGAGGCAGGGUCCAGCCCCUCUCGGGGAGGGGCUGAGGGGAGGCCCCGAGGGACUCUACCUCCUCACUGGCCAGCCUGUCCUGGAGCAGGCAGC
......(((((((((((((.(((((((((((((((.....))))))))..((((...))))...))))))).)))))))).))))).((((((......))))))... ( -70.30)
>rn3.chr5/154760648-154760758
AGAAAGGGCCAUGGGGAGGCAGGGCCCAGCCCCUCUGUGGGGAGGGGCUGAGGGGAGGCCCCUGAGGGACUCUACCUCCUCACUGACCAGCCUGCCCAGCAGCAGGCAGC
......((.((((((((((.((((((((((((((((....))))))))).(((((...)))))..))).)))).)))))))).)).)).((((((......))))))... ( -64.80)
>consensus
AGGA____AGGGCCAUGGGGAGGCAGGGCCCAGCCCCUC_GU___GGGGAGGGGCUGAGGGAAGGCCCC___CGAAGGACUCUACCUCCUCACCAACAAGCCUGCCCAGGAACAGGCAGC
..........((...((((((((.(((((((((((((((.........))))))))).(((....))).........)))))).)))))))))).....(((((........)))))... (-34.70 = -37.82 +   3.12)

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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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