Structure #93514

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr19
Strand	+
Position	7,849,668 - 7,849,786
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	77.62
Columns	120
Mean single MFE	-62.02
Consensus MFE	-40.71
Combinations/base pair	40 / 37 = 1.08
SCI	0.66
z-score	-3.49
RNA class probability	0.999853

This structure is part of cluster 49158

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  77.62
 Mean single sequence MFE: -62.03
 Consensus MFE: -40.71
 Energy contribution: -44.15
 Covariance contribution:   3.44
 Mean z-score:  -3.49
 Structure conservation index:   0.66
 SVM decision value:   4.26
 SVM RNA-class probability: 0.999853
 Prediction: RNA

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

>hg17.chr19/7849668-7849786
GGAGACCUGAACCUCAGUCCAGCCCUACAGGCUCCAGGCCUGCAGGGAAGGAGGGUAAUGGGGAGGCAGGGCCCAGCCCCCCAGUUUGGGGAAACAGCUGAGGGAAGGCCCCCCUCAA
.....(((..((((...(((..((((.(((((.....))))).))))..)))))))...)))((((..(((((...(((..((((....(....).)))).)))..))))).)))).. ( -54.80)
>canFam1.chr??/146-261
GGAGACCUUGAGCCUCAGUCCAGCCCAGCAGGCUCCAGGCCUGUGGGGAGCUGGGGGGGAGGGGGAGGCAGGGCCCACCCCCACGUUGGAGAGGCUGAGGGAAGGCCCCCCUGGA
.....((((.((((((...(((((((.((((((.....))))))..)).)))))(((((.(((..........))).)))))........)))))).)))).(((....)))... ( -59.10)
>mm5.chr4/134426398-134426506
GGGGCCCUUGAACCUCAAUCCAGCCCUGCAGGCUCCAGGCCUGCAAGGAAGGGCCAUGGGGAGGCAGGGUCCAGCCCCUCUCGGGGAGGGGCUGAGGGGAGGCCCCGA
((((((......((((......(((((((...((((((((((........))))).)))))..))))))).(((((((((.....))))))))).)))).)))))).. ( -68.50)
>rn3.chr??/158-266
GGCCCUUGAACCUCAAUCCAGCCCUGCAGGCUCCAGGCCUGCAAGAAAGGGCCAUGGGGAGGCAGGGCCCAGCCCCUCUGUGGGGAGGGGCUGAGGGGAGGCCCCUGA
((((((....((((...((((((((((((((.....)))))).....)))))..))).)))).))))))((((((((((....))))))))))(((((...))))).. ( -65.70)
>consensus
GGAGACCUUGAACCUCAAUCCAGCCCUGCAGGCUCCAGGCCUGCAAGGA____AGGGCCAUGGGGAGGCAGGGCCCAGCCCCUC_GU___GGGGAGGGGCUGAGGGAAGGCCCC___CGA
((.(.((((...(((((((((.(((((((...((((((((((............))))).)))))..)))))))....((((........))))..))))))))).)))))))....... (-40.71 = -44.15 +   3.44)

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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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