Structure #169

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr21
Strand	-
Position	15,807,334 - 15,807,454
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	89.54
Columns	120
Mean single MFE	-28.23
Consensus MFE	-26.23
Combinations/base pair	44 / 35 = 1.26
SCI	0.93
z-score	-2.09
RNA class probability	0.974365

This structure is part of cluster 63684

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  89.54
 Mean single sequence MFE: -28.23
 Consensus MFE: -26.23
 Energy contribution: -24.48
 Covariance contribution:  -1.75
 Mean z-score:  -2.09
 Structure conservation index:   0.93
 SVM decision value:   1.73
 SVM RNA-class probability: 0.974365
 Prediction: RNA

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>hg17.chr21/15807454-15807334
AGCAGAAUAUAUGAUGCUUUCAUAAAUAAGUAUUAGUGCAUUAGUCUUGUCCCAGUCCAAGCCAGAUUUUCCUGGCUGCUUAUUUCCCCAGGUGGCCAGAAUAAUACAAUCCCUGAUAU
..(((....(((((.....))))).....((((((........(.((((........)))).)........(((((..(((........)))..)))))..)))))).....))).... ( -26.10)
>canFam1.chr31/15350852-15350732
AGCAGAAUAUAUGAUGCUUUCAUAAAUAAAUAUUAGUACAUUAGUCUUCUUCCAGCCCAAGCCAGAUUUUCCUGGCUGCUUAUUUCCCCAGGUGGCCAGAAGAAUACAAUUCUUGAUAUG
...(((((.(((((.....)))))...................((.((((((..(((..((((((......))))))((((........)))))))..)))))).)).)))))....... ( -28.10)
>mm5.chr16/77189212-77189092
AACAGAAUAUAUGAUGCUUUCAUAAAUAAAUAUUAGUGCAUUAGUCUUCUUCCAGCCUUAGCUAGAUUUUUCUGGCUCCAUAUUUCCCUAGGUGGCCAGAAGAACACAAUCCCUGAUAU
.........(((((.....))))).....(((((((.(.(((.((.((((((..(((..(((((((....)))))))((...........)).)))..)))))).))))).)))))))) ( -28.10)
>rn3.chr11/15624532-15624412
AACAGAAUAUAUGGUGCUUUCAUAAAUAAAUAUUAGUGCAUUAGUCUUCUUCCAGCCAAAGCCAGAUUUUUCUGGCUCUGUAUUUCCCUAGGUGGCCAGGAGAGCACAAUCCCUGAUAU
..(((......((((((.((.(((......))).)).))))))((.((((((..((((.(((((((....)))))))(((........))).))))..)))))).)).....))).... ( -30.60)
>consensus
AACAGAAUAUAUGAUGCUUUCAUAAAUAAAUAUUAGUGCAUUAGUCUUCUUCCAGCCCAAGCCAGAUUUUCCUGGCUCCUUAUUUCCCCAGGUGGCCAGAAGAACACAAUCCCUGAUAU_
.........(((((.....))))).....(((((((.(.(((.((.((((((..(((..((((((......))))))........((...)).)))..)))))).)))))).))))))). (-26.23 = -24.48 +  -1.75)

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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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