Structure #489

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr21
Strand	-
Position	25,637,739 - 25,637,825
Number of sequences	5
Organisms	human, mouse, rat, dog, chicken
Mean pairwise identity	75
Columns	92
Mean single MFE	-18.16
Consensus MFE	-12.08
Combinations/base pair	30 / 21 = 1.43
SCI	0.67
z-score	-2.03
RNA class probability	0.976266

This structure is part of cluster 63887

Alignment

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RNAz output

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

 Sequences: 5
 Slice: 1 to 92
 Columns: 92
 Strand: +
 Mean pairwise identity:  75.00
 Mean single sequence MFE: -18.16
 Consensus MFE: -12.08
 Energy contribution: -11.64
 Covariance contribution:  -0.44
 Mean z-score:  -2.03
 Structure conservation index:   0.67
 SVM decision value:   1.77
 SVM RNA-class probability: 0.976266
 Prediction: RNA

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>hg17.chr21/25637825-25637739
GUGGGCAAACCCAUAUUUAAAUCUUAUUUCCCAUCACAUUUGAUAGGAAAGCCUCUCUCUCACAGCUUUUGUCUGCCUGCUUAUGG
(..((((.((................(((((.((((....)))).)))))((............))....)).))))..)...... ( -17.40)
>mm5.chr16/84910220-84910136
GUGGGCAAACCAAUAUUUAAAUCUUAUUCCCAAUCACAUUUAAUAAGAAAGCCUCUCACAGCUUUUCUGUUUGCCUGCUUAUGG
(..(((((((...........(((((((.............)))))))((((........))))....)))))))..)...... ( -18.82)
>rn3.chr11/24001136-24001052
GUGGGCAAACCAAUAUUUAAAUCUUAUUUCCCAUCACAUUUAAUAGGGAAGCCUCUCACAGCUUUUCUGUUUGCCUGCUUAUGG
(..(((((((......((((((...............)))))).((..((((........))))..)))))))))..)...... ( -20.96)
>canFam1.chr31/23915100-23915016
GUGGGCAAACCGAUAUUUAAAUCUUAUUUCCCAUCACAUUUGAUAGGAAAGCCUCUUGCAGCUUUUCUGUCUGCCUGCUUAUGG
(..((((....(((......)))..................(((((((((((........)))))))))))))))..)...... ( -23.90)
>galGal2.chr1/96200489-96200404
GUGAGUAGCCCACAAUAUAAAUGUUUAUUCACUGUUACUUGUAUAAGAAAACAUCAUGAUUUUAUUAAAAUCUGUUUGACCCUAC
(..((((((....((((........))))....))))))..)......(((((....(((((.....))))))))))........ (  -9.70)
>consensus
GUGGGCAAACCAAUAUUUAAAU_CUUAUUUCCCAUCACAUUUAAUAGGAAAGCCUCUC____ACAGCUUUUCU___GUCUGCCUGCUUAUGG
((((((((((.............((((((.............))))))(((((............)))))......))))))))))...... (-12.08 = -11.64 +  -0.44)

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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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