Prophage locations and Gene Content

A list of the locations of all the prophages found by PhiSpy in all the genomes we searched. This table also contains a count of the number of phage genes and the total number of genes.

Columns in this file

1. Assembly accession ID, as used by GenBank assembly
2. Genome Description
3. Contig name from the genome assembly
4. Start on the contig
5. End on the contig
6. Prophage name (the contig, plus PP and a sequential number)
7. How many phage genes (see below)
8. How many total genes

Phage genes are defined as including one of these words:

• 'integrase'
• 'phage'
• 'lysin'
• 'endolysin'
• 'holin'
• 'capsid'
• 'tail'
• 'bacteriophage'
• 'prophage'
• 'portal'
• 'terminase'
• 'tapemeasure'
• 'baseplate'
• 'virion'
• 'antirepressor'
• 'excisionase'
• 'tape measure'
• 'Cro-like repressor'
• 'CI-like repressor'
• 'rIIA lysis'
• 'rI lysis'
• 'rIIB lysis'
• 'base plate'
• ('head' and 'decoration')
• ('helix' and 'turn')
• 'HNH endonuclease'
• 'single stranded dna binding protein'