Structure #158500

Summary

Genome/Assembly	hg17
Chromosome/Contig	chr6
Strand	-
Position	33,440,687 - 33,440,806
Number of sequences	4
Organisms	human, dog, mouse, rat
Mean pairwise identity	71.25
Columns	120
Mean single MFE	-62
Consensus MFE	-44.86
Combinations/base pair	59 / 40 = 1.48
SCI	0.72
z-score	-3.63
RNA class probability	0.999993

This structure is part of cluster 87789

Alignment

[Download Clustal]

RNAz output

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

 Sequences: 4
 Slice: 1 to 120
 Columns: 120
 Strand: +
 Mean pairwise identity:  71.25
 Mean single sequence MFE: -62.00
 Consensus MFE: -44.86
 Energy contribution: -45.05
 Covariance contribution:   0.19
 Mean z-score:  -3.63
 Structure conservation index:   0.72
 SVM decision value:   5.74
 SVM RNA-class probability: 0.999993
 Prediction: RNA

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

>hg17.chr6/33440806-33440687
GCUCCCUGUCCCUGGGCAGGAGUGCUGGUGAGGAGGUGGAGCCUUUUGAGGGGGGCCUUCCCUCAGCUGUUUCCCCACACUGGGGGGCUGGGCCCUGCCUCCCCGUUACCCUCCUUCCC
((.(((((((....)))))).).)).((..((((((.(.(((.....(((((((((((((((((((.(((......)))))))))))..))))))).))))...))).)))))))..)) ( -61.30)
>canFam1.chr2/76373478-76373365
GCUACCUGUCCCUCGGCAGGGGUGUUGGGGAGGGGGCAGUCCUUCCAGGGGGGCCUUCCCUCAGCCUCUCCAACGUGGGGGUGGGCCCUGCCUCCCCCUCCCCCCCAGCUCCC
(((.((((((....))))))((.(..((((((((((.((.((.....))(((((((.((((((............)))))).)))))))..)))))))))))))))))).... ( -61.10)
>mm5.chr4/134426551-134426443
GCUGCCUGCUCCAGGACAGGCUGGCCAGUGAGGAGGUAGAGUCCCUCGGGGCCUCCCCUCAGCCCCUCCCCGAGAGGGGCUGGACCCUGCCUCCCCAUGGCCCUUCCU
...((((((.....).))))).(((((.((.((((((((.((((...((((...))))..((((((((.....)))))))))))).)))))))).)))))))...... ( -61.90)
>rn3.chr5/154760758-154760648
GCUGCCUGCUGCUGGGCAGGCUGGUCAGUGAGGAGGUAGAGUCCCUCAGGGGCCUCCCCUCAGCCCCUCCCCACAGAGGGGCUGGGCCCUGCCUCCCCAUGGCCCUUUCU
...(((((((....))))))).(((((.((.((((((((.((((...(((((...))))).((((((((......)))))))))))).)))))))).)))))))...... ( -63.70)
>consensus
GCUGCCUGCCCCUGGGCAGGCGGGCCAGUGAGGAGGUAGAGUCCCUCG___GGGGCCUCCCCUCAGCCCCUCCCC___AC_GAGGGGCUGGGCCCUGCCUCCCCAUGGCCCU____UCCC
((((((((((....)))))).))))(((((.((((((((.((((......(((((....)))))((((((((.........)))))))))))).)))))))).)))))............ (-44.86 = -45.05 +   0.19)

[Download RNAz result]

Consensus structure

Secondary structure graph

Secondary structure

[PS | PDF]

Montain plot

Secondary structure

[PS | PDF]

Dotplot

Secondary structure

[PS | PDF]