Enterococcus faecalis OG1RF

Baylor College of Medicine

GC Content: 37.8%, Released Date: July 15, 2008 #18035

Search Genome

Annotation search: search for genes and features in this genome

BLAST search: search for nucleotide or protein sequences in this genome

Pattern search: search for specific short patterns in this genome

This tool allows you to search within a genome for short DNA sequence patterns, such as a binding site consensus sequence. You can use any IUPAC code, so Ns, Rs, Ys etc. are allowed. Multipliers are contained in parentheses, so you can say A(14), which means a run of 14 As, or A(5 15) which means between 5 and 15 As. Square brackets indicate classes, so [AT] means either A or T. You can also have negatated classes (indicated by braces), so {AT} means neither A nor T. This tool uses the program fuzznuc, part of the EMBOSS software suite- see here for further documentation.

Restrict to region:   bp. upstream of a gene 
Leave blank for no restriction.

Report matches:  in any location within intergenic regions only overlapping genes only  

Allow  1 2 3 4 5 6 7 8 9  mismatched bases 

Sequences

References

• Large scale variation in Enterococcus faecalis illustrated by the genome analysis of strain OG1RF
  Bourgogne,A., Garsin,D.A., Qin,X., Singh,K.V., Sillanpaa,J., Yerrapragada,S., Ding,Y., Dugan-Rocha,S., Buhay,C., Shen,H., Chen,G., Williams,G., Muzny,D., Maadani,A., Fox,K.A., Gioia,J., Chen,L., Shang,Y., Arias,C.A., Nallapareddy,S.R., Zhao,M., Prakash,V.P., Chowdhury,S., Jiang,H., Gibbs,R.A., Murray,B.E., Highlander,S.K. and Weinstock,G.M. Genome Biol. 9 (7), R110 (2008)
  PubMed, PubGet, HubMed

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