Structure #22426

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr1
Strand	-
Position	216,679,607 - 216,679,686
Number of sequences	5
Organisms	human, mouse, rat, dog, chicken
Mean pairwise identity	84.79
Columns	80
Mean single MFE	-25.96
Consensus MFE	-21.14
Combinations/base pair	41 / 30 = 1.37
SCI	0.81
z-score	-3.56
RNA class probability	0.999116

This structure is part of cluster 10044

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 80
 Columns: 80
 Strand: +
 Mean pairwise identity:  84.79
 Mean single sequence MFE: -25.96
 Consensus MFE: -21.14
 Energy contribution: -21.30
 Covariance contribution:   0.16
 Mean z-score:  -3.56
 Structure conservation index:   0.81
 SVM decision value:   3.38
 SVM RNA-class probability: 0.999116
 Prediction: RNA

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>hg17.chr1/216679686-216679607
GGUAUACAGGAAAAUGACCUAUGAAUUGACAGACAAUAUAGCUGAGUUUGUCUGUCAUUUCUUUAGGCCAAUAUUCUGU
.....((((((.(.((.((((.(((.((((((((((...........)))))))))).)))..)))).)).).)))))) ( -27.00)
>mm5.chr1/10252049-10252127
GGUGUACAGGAGAAUGACCUAUGAUUUGACAGACCGUGCAGCUGUGUAUGUCUGUCAUUCUGUAGGCCAAUAUUCUGU
.....((((((...((.(((((((..((((((((.(((((....))))))))))))).)).))))).))...)))))) ( -28.40)
>rn3.chr13/9847150-9847228
GGUGUACAGGACAAUGACCUAUGAUUUGACAGACAGUGUGGCUGCGUGUGUCUGUCAUUCUGUAGGCCAAUAUUCUGU
(((.(((((((((........))...((((((((.(..((....))..)))))))))))))))).))).......... ( -25.20)
>canFam1.chr38/17893316-17893237
GGUGUACAGGAAAAUGACCUACGAAUUGAUAGACAAUUUGGCUAAGUUUGUCUGUCAUUUUUGUAGGCCAAUAUUCUGU
.....((((((.(.((.((((((((.((((((((((.((.....)).))))))))))..)))))))).)).).)))))) ( -28.30)
>galGal2.chr3/93503524-93503602
GGUGUCCAGGAAAAUGACCUAUGAAUUGACAGACUGCUUUCAAAAUGUGCCUGUCAUUUCUAUAGGCCAAUAUUCUGU
......(((((.(.((.((((((((.((((((...((...........)))))))).))).))))).)).).))))). ( -20.90)
>consensus
GGUGUACAGGAAAAUGACCUAUGAAUUGACAGACAGUGUAG_CUGAGUGUGUCUGUCAUUUCUGUAGGCCAAUAUUCUGU
.....((((((...((.((((((((.((((((((((((((...))))).))))))))).))).))))).))...)))))) (-21.14 = -21.30 +   0.16)

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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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