Structure #44295

Summary

Genome/Assembly hg17
Chromosome/Contig chr12
Strand +
Position 3,231,866 - 3,231,974
Number of sequences 4
Organisms human, mouse, rat, dog
Mean pairwise identity 78.5
Columns 120
Mean single MFE -49.9
Consensus MFE -35.38
Combinations/base pair 40 / 28 = 1.43
SCI 0.71
z-score -3.62
RNA class probability 0.999875

This structure is part of cluster 22010

Alignment

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  78.50
 Mean single sequence MFE: -49.90
 Consensus MFE: -35.38
 Energy contribution: -33.57
 Covariance contribution:  -1.81
 Mean z-score:  -3.62
 Structure conservation index:   0.71
 SVM decision value:   4.34
 SVM RNA-class probability: 0.999875
 Prediction: RNA

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>hg17.chr12/3231866-3231974
CGGGGCCAGGGAGAAAUCCCAGCCCCUGGGCUCCCCCCAGCCCCAUGCCCUUAUAUAGCCGUCCCUGCACUCCCAGAGCUCCGGGGGUGGGGACGGAGCCCCCUCCUA
.(((((..((((....)))).))))).((((((((((((.((((..((.((......((.......))......)).))...)))).)))))..)))))))....... ( -56.40)
>mm5.chr6/21081852-21081741
GGGGCCAGGAGAAACCCCAGCCCCCUGGGCUCCCCCCUAGUCCCAUGCCCUUAUAUGGCUGUCCUUAUAUAGCUGCCCUGCACUCCAGGACAGGGACAGAGCCCCUCCUA
((((((.((((....(((((....)))))))))......(((((..(((.......)))((((((......((......)).....))))))))))).).)))))..... ( -44.30)
>rn3.chr4/22681016-22680905
GGGGCCAGGAGAAACCCCAGCCCCCUGGGCUCCCCCUUAGUCCCAUGCCCUUAUAUGGUUGUCCUUAUAUAGCUGCCCUGCACUCCAGGACAGGGACAGAGCCCCUCCUA
((((((.((((....(((((....)))))))))......(((((....((......)).((((((......((......)).....))))))))))).).)))))..... ( -42.40)
>canFam1.chr27/4537795-4537680
CGGGGCCGGGCAGAAAUCCCAGCCCCCUGGGCUCCCCCCAGCCCCAUGCCCUUGUAUAGCUGUCCCCAUGCUCUCAGAGCUCCGGGGGUGGGGACGGAGCCCCCCCCCUCCACUA
.(((((.(((.(....)))).)))))..((((((((((((.((((((((....))))............((((...))))...)))).)))))..)))))))............. ( -56.50)
>consensus
_GGGGCCA_GGAGAAACCCCAGCCCCCUGGGCUCCCCCC_AGCCCCAUGCCCUUAUAUAGCUGUCCCUAUA____CGCCCAGAACUCC_AGGACAGGGACAGAG_CCCCUC______CUA
.(((((..(((((....(((((....)))))))))).....)))))..............((((((((((.....(((...)))........)))))))))).................. (-35.38 = -33.57 +  -1.81) 

	

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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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