Structure #127699

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr3
Strand	-
Position	109,226,802 - 109,226,921
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	83.96
Columns	120
Mean single MFE	-32.85
Consensus MFE	-20.05
Combinations/base pair	33 / 27 = 1.22
SCI	0.61
z-score	-3.33
RNA class probability	0.96929

This structure is part of cluster 70083

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  83.96
 Mean single sequence MFE: -32.85
 Consensus MFE: -20.05
 Energy contribution: -20.30
 Covariance contribution:   0.25
 Mean z-score:  -3.33
 Structure conservation index:   0.61
 SVM decision value:   1.64
 SVM RNA-class probability: 0.969290
 Prediction: RNA

######################################################################

>hg17.chr3/109226921-109226802
ACUCAUCAUCCAUCACACCAGCCCAAUUCUAUUUUUCUAGCUCGACAGAACACACUGUGCUCUCUGGAGCCACAAAGAGAAGAAAAUAUUCCCUCCAGCACUCCUGCGUGAUGAAUUUU
..........((((((................((((((..(((.((((......))))((((....))))......))).))))))...........(((....)))))))))...... ( -25.20)
>mm5.chr16/48959584-48959703
AAUAACUGUUCAUCACACCAACCCAGUUCUAUUUGUCCAGCUCGGCAGAGCACACUGUGCUCUCUGAAGCCACAAAGGGGAGGAAAUAUUCCCUCCCACACUCCUGGAUGAUGAAUUUU
.......((((((((..(((...........(((((...((((((.(((((((...)))))))))).))).))))).((((((........)))))).......))).))))))))... ( -40.60)
>rn3.chr11/52134686-52134567
AAUAACUGUUCAUCACACCAACCCAGUUCUAUUUGUCCAGCUCGGCAGAGCACACUGUGCUCUCUGGAGCCACAAAGGGGAGGAAAUAUUCCCUCCCACACUCCCGUAUGAUGAGUUUU
........(((((((.((.............(((((...((((.(.(((((((...))))))).).)))).))))).((((((........))))))........)).))))))).... ( -39.10)
>canFam1.chr33/16368616-16368496
AAUAAGCAUCCAUCACAUGAACCCAAUUCUAUUGUUCUAGCUCGACAAGGCACACUGUGCCCUCUGGAGCCACAAAGGGGGAGAAAAUAUUCCCUCCAAUAUCCCUGCAUGAUAAAUUCU
...............((((............((((....((((.(...(((((...)))))...).)))).)))).(((((.(((....))))))))..........))))......... ( -26.50)
>consensus
AAUAACCAUCCAUCACACCAACCCAAUUCUAUUUGUCCAGCUCGACAGAGCACACUGUGCUCUCUGGAGCCACAAAGGGG_AGAAAAUAUUCCCUCCAACACUCCUGCAUGAUGAAUUUU
.......((((((((........................((((.(.(((((((...))))))).).))))......((((..(((....))))))).............))))))))... (-20.05 = -20.30 +   0.25) 

	

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Consensus structure

Secondary structure graph

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Montain plot

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Dotplot

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