Structure #7643

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr1
Strand	-
Position	38,398,355 - 38,398,464
Number of sequences	4
Organisms	human, mouse, rat, dog
Mean pairwise identity	82.29
Columns	110
Mean single MFE	-29.65
Consensus MFE	-20.1
Combinations/base pair	29 / 27 = 1.07
SCI	0.68
z-score	-1.7
RNA class probability	0.63991

This structure is part of cluster 2061

Alignment

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RNAz output

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

 Sequences: 4
 Slice: 1 to 110
 Columns: 110
 Strand: +
 Mean pairwise identity:  82.29
 Mean single sequence MFE: -29.65
 Consensus MFE: -20.10
 Energy contribution: -21.85
 Covariance contribution:   1.75
 Mean z-score:  -1.70
 Structure conservation index:   0.68
 SVM decision value:   0.22
 SVM RNA-class probability: 0.639910
 Prediction: RNA

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

>hg17.chr1/38398464-38398355
CCCACCUUCUGCCCUUGGAAAUGAAUCAUUUAAGAUUCCCCUUUCAUCUGGAACCUCUCAAACAGCCUCAUGAGCUGUGAGCCUGUCUCCCUAGGUAGAAUUUAAGGCA
....(((((((((..(((((..(((((......)))))...)))))...(((..(.(((..((((((....).))))))))...)..)))...)))))).....))).. ( -25.70)
>mm5.chr4/31311015-31311122
CCCACCUUCUGCCCUAGGAGUUGAAUCAUUUAAGAUUCCCCUUUUGUCCUAGAGCCUGAGAGCAGCCCAAAGCCAUGGGCAUGUCUCCCUGGAUAGAAUUUAAGGCG
..........(((.((((....(((((......)))))...((((((((.((.(...((((.(((((((......))))).))))))))))))))))))))).))). ( -29.90)
>rn3.chr5/29316318-29316425
CCCACCUUCUGCCCUAGGAGUUGAAUCAUUUACGAUUCCCCUUUUGUCCUAGAGCCUGAGAGCAGCCCAAAGCCAUGGGCAUGUCUCCCUGGGUAGAAUUUAAGGCG
....((((((((((.(((....(((((......)))))...................((((.(((((((......))))).)))))))))))))))).....))).. ( -33.60)
>canFam1.chr15/59876552-59876662
CCCACCUUCUGCCCUUGGAAAUGAAUCAUUUAAGAUUCCUCUUUCAUUCUGGAGCCUCUCAAACAGCCUCAUGAGCUGUGAGCAUGUCUCCCAAGGUAGAAUUUAAGGCA
....(((((((((.(((((((.(((((......)))))...)))).....((((.(.(((..((((((....).))))))))...).))))))))))))).....))).. ( -29.40)
>consensus
CCCACCUUCUGCCCUAGGAAAUGAAUCAUUUAAGAUUCCCCUUUCAUCCUAGAGCC_CGAAAACAGCCCAA__AGCCAUGAGCAUGUCUCCCUAGGUAGAAUUUAAGGCA
....((((((((((..((((..(((((......)))))........................((((((((........))))).)))))))..))))))).....))).. (-20.10 = -21.85 +   1.75)

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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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