Structure #15328

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr1
Strand	+
Position	119,219,491 - 119,219,611
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	92.63
Columns	120
Mean single MFE	-24.53
Consensus MFE	-18.42
Combinations/base pair	30 / 30 = 1.00
SCI	0.75
z-score	-2.24
RNA class probability	0.686705

This structure is part of cluster 6258

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  92.63
 Mean single sequence MFE: -24.53
 Consensus MFE: -18.42
 Energy contribution: -19.43
 Covariance contribution:   1.00
 Mean z-score:  -2.24
 Structure conservation index:   0.75
 SVM decision value:   0.32
 SVM RNA-class probability: 0.686704
 Prediction: RNA

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>hg17.chr1/119219491-119219611
CCCCUCCAGGCUUUUCCAGUGGUUCCAAUUCUUUCCUACUACAGGAAGAGAUAAACACCCUUCAUAUAUUUCCUCUCACCCCCAACUGCAAGGAAAACAGUAACACUAAUUAGUUGUAAC
..((....))(((((((.(((((..............))))).)))))))..................((((((..((........))..))))))...((.(((((....)).))).)) ( -18.14)
>mm5.chr3/61373858-61373741
CCCCUCCAGGCUCCAGCAGUUGCAAUUCUUUCCGAGUACAGGAAGGGAUAAACACCCUUCACGUAUUUCCUCUCACCCCCAACUGCAAGGAAAACAGUAACACUAAUUAGUUGUAAC
....(((.(....).(((((((...........((((((..((((((.......))))))..))))))...........)))))))..))).....((.(((((....)).))).)) ( -27.05)
>rn3.chr2/64276005-64275886
CCCCUCCAGGCUCUCCAGCAGUUGCAAUUCUUUCCUAGUACAGGAAGGGAUAAACACCCUUCAUGUAUUUCCUCUCACCCCCAACUGCAAGGAAAACAGUAACACUAAUUAGUUGUAAC
....(((.((....)).(((((((............((((((.((((((.......)))))).))))))............)))))))..))).....((.(((((....)).))).)) ( -28.85)
>canFam1.chr17/58965990-58966110
CCCCUCCAGGCUUUUCCAGGGGUCCCAAUUCUUUCCCACUACAGGAAGGGAUAAACACCCUUCAUAGAUUUCCUCUCACUCCCAACUGCAAGGAAAACAGUAACACUAAUUAGUUGUAAC
(((((...((.....))))))).................(((((((((((.......))))))...(.((((((..((........))..)))))).)...............))))).. ( -24.10)
>consensus
CCCCUCCAGGC_UUUCCAGCAGUUCCAAUUCUUUCCUACUACAGGAAGGGAUAAACACCCUUCAUAUAUUUCCUCUCACCCCCAACUGCAAGGAAAACAGUAACACUAAUUAGUUGUAAC
..((....))...........(((((((((..((.....(((..((((((.......)))))).....((((((..((........))..))))))...))).....))..))))))))) (-18.42 = -19.43 +   1.00)

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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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