Structure #171039

Summary

Genome/Assembly hg17
Chromosome/Contig chr7
Strand -
Position 72,754,198 - 72,754,318
Number of sequences 4
Organisms human, mouse, rat, dog
Mean pairwise identity 68.61
Columns 120
Mean single MFE -48.58
Consensus MFE -24.01
Combinations/base pair 31 / 24 = 1.29
SCI 0.49
z-score -1.79
RNA class probability 0.757058

This structure is part of cluster 94898

Alignment

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  68.61
 Mean single sequence MFE: -48.58
 Consensus MFE: -24.01
 Energy contribution: -24.45
 Covariance contribution:   0.44
 Mean z-score:  -1.79
 Structure conservation index:   0.49
 SVM decision value:   0.49
 SVM RNA-class probability: 0.757057
 Prediction: RNA

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

>hg17.chr7/72754318-72754198
GUUUGGGCAGCUCUCAGAAAGGGGACAGCAUGAGGGAGAGGCCGUCUGGCCUGGCCUCGUUUCCCAGCCAGGCCCCAUCCAUGGGAAGGUCACGAGAGGCACGAGCCGGGGCCAACCCCC
.((((((.....))))))..((((.........(((((((((((.......)))))))...)))).....((((((.(((...)))...........(((....)))))))))..)))). ( -49.40)
>mm5.chr5/16902103-16902222
GCCAGGGCAGCUCCCAGUGAGGGGACACACGAAGCAGAGGUUGUCAGCCUUGGCUCAGUCUCCAGGCUAGCCCUUUUCCAUGGGAAGUAUAUAAGAGGCAUGAUCCGAGGCCAAGGCCU
(((..((((((..(..(((.(....).)))......)..)))))).(((((((.((((((((...(((..(((........))).)))......))))).))).)))))))...))).. ( -45.50)
>rn3.chr12/22765404-22765293
GUCCCCAGUGAGGGGACAACAUGAGGCCGAGGUUGUCAGCCUUGGCUCAAUCUCCAGGCUAGCCCUUUUCCAUGGGAAGUACAUAAGGGGCAUGGUCUGAGGCCAAGACC
((((((.....)))))).......(((((((((((..(((....))))))))))((((((((((((((...(((.......)))))))))).))))))).))))...... ( -52.40)
>canFam1.chr6/69924030-69924135
GUUCAGGCAGCUCUCAGAAAGGGGACAGUGUGAGGGAGAGGCUGUCUGGCCUGGCCUCCUCGUCCAUGGGAAGGUCACGAGAGGCACGAGCCGGGGCCAAGCCCC
....((((((((((((.(..(....)..).)))).....))))))))(((.((((((((((((((.......))..))))).(((....)))))))))).))).. ( -47.00)
>consensus
GUC_GGGCAGCUCCCAGAAAGGGGACAGCAUGAGGCAGAGGCUGUCAGCCCUGGCCCAGUCUCCAGGCUAGCCCUCUUCCAUGGGAAGGACACAAGAGGCACGAGCCGAGGCCAAGCCCC
............(((.....)))((((((...........)))))).(((((((((................(((.......)))............(((....)))..))))))))).. (-24.01 = -24.45 +   0.44) 

	

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]