The best replacement for prophage is provirus.

The best alternatives to prophage are rated as following:
★★★★★  provirus
★★  phage
★  lysogenic
★  bacteriophage
  temperate phage

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No companions for prophage have been suggested so far.
You have in mind a companion for prophage and it is not yet here? Propose!



Google Trends

Scale is based on the average worldwide traffic of prophage in all years. Click on graph for more.
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