Structure #200991

Summary

Genome/Assembly	hg17
Chromosome/Contig	chrX
Strand	+
Position	106,809,269 - 106,809,381
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	77.04
Columns	120
Mean single MFE	-51.26
Consensus MFE	-36.23
Combinations/base pair	50 / 34 = 1.47
SCI	0.71
z-score	-2.13
RNA class probability	0.977593

This structure is part of cluster 111626

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  77.04
 Mean single sequence MFE: -51.26
 Consensus MFE: -36.23
 Energy contribution: -34.04
 Covariance contribution:  -2.19
 Mean z-score:  -2.13
 Structure conservation index:   0.71
 SVM decision value:   1.79
 SVM RNA-class probability: 0.977593
 Prediction: RNA

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

>hg17.chrX/106809269-106809381
GGCUGUGGGGGCGGGAGGAAAUUCACGGUCCUGAGUGUCUUCAGGAGCUCCCAGGCCCUGAGGGAAGCCUGGAGCUCCUGGGGCAAGUGCUGCCCUCGGGAUCUUCUGCCGA
.........((((((((........)((((((((.......((((((((((.((((((....))..))))))))))))))(((((.....)))))))))))))))))))).. ( -57.60)
>mm5.chrX/130590961-130591080
UGCUGUGGAAGCAGCGAGAUGUUCCCUGCCCUGAGUCCUGAGUGGCUUUGGGGGCUCUUGAGCUCUGAGGGAAGACUGGAGCUCCUAAGGCAAGUGCUGCCCUCAGGAUCUUCUGUGGA
.(((((....)))))..........(..(...((((((((((.(((.(((((((((((..((.(((......))))))))))))))))(((....))))))))))))).)))..)..). ( -49.60)
>rn3.chrX/128453501-128453620
UGCUGUGAAAGCAGGAAGAUGUACCCUGCCCUGAGUCCUGAGUGGCUUUGGGGGCUUUUGAGCUCUGAGGGAAAACUGGAGCUCCUGAGGCAAGUGCUGCCCUCAGGAUCUUCUGUGGA
..........(((((.........)))))((.((((((((((.(((.......(((((.(((((((.((......)))))))))..))))).......)))))))))))..))...)). ( -46.04)
>canFam1.chrX/84324888-84325000
GGCUGUGGAGGCAAGAGGAAGUUCUUGGCCCUGAGUGCCUCAGGGGCUCCUGGGCUCUGAGAGAAGGCUGGAGCUCCAGGGGUUAAGUGCUGCCCUCCGGAUCUUCUGCUGA
(((...((((((..((((.(((.((((.(((((((...)))))))(((((((((((((.((......))))))).)))))))))))).)))..))))..).))))).))).. ( -51.80)
>consensus
GGCUGUGGAAGCAGGAAGAAGUUCCC_______AGUCCUGAGUGGCUUCAGGGGCUCCUGAGCUCUGAGGGAAGACUGGAGCUCCUGAGG_CAAGUGCUGCCCUCAGGAUCUUCUGCGGA
.(((.....))).((((((................(((((((((.(((((((((((((....(((...)))......))))))))))))).)).........)))))))))))))..... (-36.23 = -34.04 +  -2.19)

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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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