Structure #140178

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr4
Strand	-
Position	129,762,742 - 129,762,816
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	81.53
Columns	74
Mean single MFE	-19.75
Consensus MFE	-14.39
Combinations/base pair	24 / 18 = 1.33
SCI	0.73
z-score	-2.22
RNA class probability	0.952483

This structure is part of cluster 77311

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 74
 Columns: 74
 Strand: +
 Mean pairwise identity:  81.53
 Mean single sequence MFE: -19.75
 Consensus MFE: -14.39
 Energy contribution: -14.45
 Covariance contribution:   0.06
 Mean z-score:  -2.22
 Structure conservation index:   0.73
 SVM decision value:   1.40
 SVM RNA-class probability: 0.952483
 Prediction: RNA

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>hg17.chr4/129762816-129762742
CAUCUGCUUGUCAUUACAGUUCAGCUCCCCUGGCCCCAGCCAGGCUGAACAGGAUGCCAAACCCACAAUGACUU
.........((((((...(((((((....(((((....)))))))))))).((.........))..)))))).. ( -23.80)
>mm5.chr3/41009155-41009081
CAUCUGCAUGUCAUUAGGGUUCAGCUCCCUGGGACCCCAUUGGUCUGAACAAGAUGCCAAACCCACAGUGACUU
.........((((((.(((((..((((..(.(((((.....))))).)....)).))..)))))..)))))).. ( -21.10)
>rn3.chr2/128162135-128162061
CAUCUGCAUGUCAUUAGGGUUCAGCUCCCUGGGACCCCAUUGGUCUGAACAAGAUGCCAAAACCACAGUGACUU
.........((((((.((((((((..((.(((....)))..)).))))))..(....)....))..)))))).. ( -18.30)
>canFam1.chr19/41374171-41374245
CAUCUGCAUGCCAUUAGAGUUCAGCUCCUCUAACCUUUAUUAGGUUGAAUAGGAUGCUAAACCCACAAUGACUU
...........((((.(.(((.(((((((.((((((.....))))))...)))).))).))).)..)))).... ( -15.80)
>consensus
CAUCUGCAUGUCAUUAGAGUUCAGCUCCCCGGGACCCCAUUAGGCUGAACAAGAUGCCAAACCCACAAUGACUU
........((.((((...(((((((((..(((....)))..)))))))))..)))).))............... (-14.39 = -14.45 +   0.06) 

	

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Consensus structure

Secondary structure graph

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Montain plot

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Dotplot

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