Structure #152414

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr5
Strand	-
Position	141,211,597 - 141,211,716
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	84.8
Columns	120
Mean single MFE	-50.05
Consensus MFE	-42.45
Combinations/base pair	50 / 39 = 1.28
SCI	0.85
z-score	-1.62
RNA class probability	0.72183

This structure is part of cluster 84280

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  84.80
 Mean single sequence MFE: -50.05
 Consensus MFE: -42.45
 Energy contribution: -41.58
 Covariance contribution:  -0.88
 Mean z-score:  -1.62
 Structure conservation index:   0.85
 SVM decision value:   0.40
 SVM RNA-class probability: 0.721830
 Prediction: RNA

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

>hg17.chr5/141211716-141211597
AGAUUGUAUGAGGCCCAUUUGCUUGGUGGAGAAGGUGGUCCAGACAGGCGGCAUUCCUGGGGUCAGUGGACUCCCACUGGAAGCCCCUAGUGGCCUGGGUACCUUGCCCUGGUCUUAGA
........(((((((.....(((((.((((........))))..)))))(((...(..(((((((((((....))))))...)))))..)..))).((((.....)))).))))))).. ( -47.80)
>canFam1.chr2/37412649-37412531
AGAUUGUAUGAGGCCCAUUUGCUUGGUGGAGAGGGUGGUCCAGACAGGAGGCAUUCCUGGAGUCACUGGACUCCCCUGGAAGCCCCUGGUGGCCUGGGUACCCUGCCCUGGUCUUGGA
.........((((((((((.....))))...(((((((.(((..((((.(((.((((.((((((....))))))...))))))))))).))))).((....)).)))))))))))... ( -50.20)
>mm5.chr18/38630619-38630500
AGAUUGUAUGAGGCCCAUCUGCUCAAUGGAGAGGGUAAUCCAGCCAAAAGGCAUCCCUGGGGUCAGUAGACUCCCUCUGGGAGCUCUUGGUGGCUUGGGUACCCUGACCUGGCCUUGGG
.........((((((......(((....)))((((((.((((((((.(((((.((((.((((((....))).)))...)))))).)))..)))).)))))))))).....))))))... ( -52.60)
>rn3.chr18/1408-1288
AGAUUGUAUGAGGCCCGUCUGCUCAGUGGGGAGGGGAAUCCAGCCAAGAGGCGUCCCUGGGGUCAGUAGGACUCCCACUGGAAGCCCCUGGUAGCUUGGGUACCCUGACCUGGCCUUGGA
.........((((((...((....)).(((..((((.(((((((((.(.(((.(((.(((((((.....))).))))..))).)))).))))....))))).))))..)))))))))... ( -49.60)
>consensus
AGAUUGUAUGAGGCCCAUCUGCUCAGUGGAGAGGGUAAUCCAGACAAGAGGCAUCCCUGGGGUCAGU_GGACUCCCACUGGAAGCCCCUGGUGGCCUGGGUACCCUGACCUGGCCUUGGA
........(((((((......(((....)))((((((.((((((((((.(((.((((.((((((.....))))))....))))))))))))....))))))))))).....))))))).. (-42.45 = -41.58 +  -0.88)

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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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