Structure #134588

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr4
Strand	+
Position	12,746,362 - 12,746,481
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	84.15
Columns	120
Mean single MFE	-38.25
Consensus MFE	-25.71
Combinations/base pair	32 / 27 = 1.19
SCI	0.67
z-score	-1.95
RNA class probability	0.769645

This structure is part of cluster 73986

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  84.15
 Mean single sequence MFE: -38.26
 Consensus MFE: -25.71
 Energy contribution: -26.65
 Covariance contribution:   0.94
 Mean z-score:  -1.95
 Structure conservation index:   0.67
 SVM decision value:   0.53
 SVM RNA-class probability: 0.769645
 Prediction: RNA

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>hg17.chr4/12746362-12746481
UUUUCAUUUUUAAGCACAUGGGUGGUUGCCUCCACAUUGAGGAACCAUUCACAGCCAGGGAAAACACCCCCAAAAUGAUUUUCCAGGGCAUCUGUGCCCUUGUAGAGGCUGCCACGAUG
...((.............(((((((((.((((......)))))))))))))(((((.(((........))).......(((.(.((((((....)))))).).))))))))....)).. ( -39.20)
>canFam1.chr3/24971568-24971449
UUUUCAUUUUUAAGCACGUGUGUGGUCGCCUCCACAUUGAUGGACUAUUCACAGCCAGGGAAAACACCCCCAAAAUCAUUUUCCAGGGCAUCUGUGCCCUCGUGGAGGCUGCCACGAUG
................(((.((((((.((((((((..((((((.((......)))).(((........)))...))))......((((((....)))))).)))))))).))))))))) ( -44.30)
>mm5.chr5/39887065-39887181
UUUUCAUUUUUUACACAUGUGUGUGGUCGCCUGCACAUUGAGGAGCCAUUCACGGCCAAAGAAACUCCCCGAGAUCAUUUCCCAGGGCAUCUGUGCCCUGUGGGGCUGCCAUGAUG
...((((........((.(((((..(....)..))))))).((((((..((.(((.............))).))......(((((((((....))))))).)))))).)))))).. ( -36.42)
>rn3.chr14/37426516-37426401
UUUUCAUUUUUACACGUGUGUGUGGUCGCCUGCACAUUGAGAAGCCAUUCACAGCCAAAGAAACACCCUGAGAUCAUUUCCCAGGGCAUCUGUGCCCUGUGGGGCUGCCAUGAUG
((((((...........(((((..(....)..)))))))))))..(((...(((((............((....))...(((((((((....))))))).)))))))..)))... ( -33.10)
>consensus
UUUUCA_UUUUUAAACACGUGUGUGGUCGCCUCCACAUUGAGGAACCAUUCACAGCCAAAGAAA__ACCCCCAAAAUCAUUUCCCAGGGCAUCUGUGCCC_UGU_GAGGCUGCCACGAUG
......................(((((.(((((.((.(((.((((...(((.........)))...)))).)))............(((((....)))))..)).))))).))))).... (-25.71 = -26.65 +   0.94)

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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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