Madison edited Organism Identification using 16s rRNA gene sequence.md  almost 10 years ago

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##Interpreting the results  Depending on the quality of the Sanger sequencing and the particular bacteria sequenced, the BLAST results can range from definitive to relatively uninformative. Examples of both are discussed below.  1. In FigureX, some cases  it is not necessary to build a phylogenetic tree for further identification. All If all  of the top hits are either Kocuria rosea or Kocuria sp, the same species (or end in sp.),  have e-values of 0.0, perfect query coverage, and 99% to 100% identity. In this case, identity you can  proceed to section XX  "Using GOLD". 2. In FigureX other cases  the results are much more ambiguous. The results may  show more than 99% identity to multiple species within multiple genera. In this case, proceed to section XX  "Making a Phylogenetic Tree", before using GOLD. ##Using GOLD (the Genomes Online Database)  Go to: http://genomesonline.org/cgi-bin/GOLD/index.cgi