Genomes

Genomes are grouped by domain in the pop-up menus. First the Bacteria are listed, then the Archaea and then Eukaryota.

Within each domain genomes are listed in alphabetical order.

Genome query for

Cross-phylum ubiquitous genes

Find genes from the selected genome that are found by reciprocal best match, or found by consensus gene name, in a specified majority of genomes from each prokaryotic phylum.
If you wish to analyse only a subset of prokaryotic genomes, define this subset by adding or removing genomes from one of the following preselects:

A blank list.
All genomes preselected.
All archaeal genomes preselected.
All bacterial genomes preselected.
more information...

Choose a BLASTP cutoff e-value (1.0e-300 to 1.0e-3): 1.0e-

(You may not select a range of BLASTP cutoff e-values for this analysis.)
The BLASTP cutoff is only relevant if you select the reciprocal best match option.

Find ORFs from the following genome that are ubiquitously distributed across prokaryotic phyla:

Proportion of genomes within a phylum that must match:

Restrict the analysis to prokaryotic genomes from defined set #1.
Analyse all prokaryotic genomes.

Analyse using reciprocal best match, with 95% tolerance for near ties.
Analyse using consensus gene names.