Structure #198330

Summary

Genome/Assembly	hg17
Chromosome/Contig	chrX
Strand	+
Position	68,360,458 - 68,360,578
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	83.15
Columns	120
Mean single MFE	-42.15
Consensus MFE	-28.89
Combinations/base pair	37 / 32 = 1.16
SCI	0.69
z-score	-1.94
RNA class probability	0.8054

This structure is part of cluster 110221

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  83.15
 Mean single sequence MFE: -42.15
 Consensus MFE: -28.89
 Energy contribution: -30.01
 Covariance contribution:   1.12
 Mean z-score:  -1.94
 Structure conservation index:   0.69
 SVM decision value:   0.63
 SVM RNA-class probability: 0.805400
 Prediction: RNA

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

>hg17.chrX/68360458-68360578
AGCCAAAUGGAGGCUGCUCCCACCCCUUGAAAGAGAGGAGAAAGGGGGAAGGGGUGCAGAACAGCCUUCCAGAAGGGAUAGCUUUGCCGAGUUUCAGCCUAAUAUCCUGGAGCUAUUCCU
.......((((((((((.(((.((((((.............))))))....))).)).....)))).))))..((((((((((((((.(.....).))..........)))))))))))) ( -41.62)
>canFam1.chrX/56562162-56562282
AGCCAAACAGAGGCCCCUCCCGCAUGUGGGAGGAGAGGGGAAAGGGGGAAGGGGAGUGGAACAGCCUUCCAGAAGGGAUAACUUUGCUGAGUUUCAGUCUAAUAUCCUGGAGCUAUUCCU
.(((.......))).(((((((....)))))))....(((((.((.((((((............))))))....((((((.....((((.....))))....))))))....)).))))) ( -40.30)
>mm5.chrX/91028308-91028421
AGCCAAAUGGAGGCCUCUCCCACCCCUAAGAGGAGAGGGGAGAGGGGAGUAGAGCAGCCUUCCAGAAAGGAUAGCUUUGCUGAGUUUCAGCCUAAUAUCCUGGAGCUAUUCCU
........((((.((((((((..(((.....)).)..))))))))..((((((((..((((.....))))...)))))))).((((((((.........)))))))).)))). ( -43.80)
>rn3.chrX/87708097-87708215
AGCCAAAUGGAGGCCCCUCCUGCUCCUAAGAAGAGAAGAGAGGGGAGAGGGGAGUCGAGCAGCCUUCCAGAAGGGAUAGCUCUGCUAAGUUCCAGCCUAAUAUCCUGGAGCUAUUCCU
........((((.((((((((.(((((.........)).))).)).))))))(((.((((..((((.....))))...)))).))).((((((((.........)))))))).)))). ( -42.90)
>consensus
AGCCAAAUGGAGGCCCCUCCCACCCCU__AAGGAGAGAAGAAAGGGGAAAGGGGAGUAGAACAGCCUUCCAGAAGGGAUAGCUUUGCUGAGUUUCAGCCUAAUAUCCUGGAGCUAUUCCU
........((((((..(((((.(((((...............)))))....))))).......))))))....((((((((((((((((.....))))..........)))))))))))) (-28.89 = -30.01 +   1.12)

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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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