FIG. 3.

r1t-like S. pyogenes prophages. (A) Alignment of the S. pyogenes prophage 370.3 with the L. lactis prophage r1t. (B) Alignment of r1t-like prophages from the three sequenced S. pyogenes genomes. Genes sharing sequence relationships are linked by shading. Boxes A to E mark features discussed in the text. The prophage modules, as identified by bioinformatic analysis, are color coded. Lysogeny, red; DNA replication, orange; transcriptional regulation?, yellow; DNA packaging and head, green; head-to-tail joining, brown; tail, blue; tail fiber, mauve; lysis, violet; lysogenic conversion, black; unattributed genes, grey. Selected genes were annotated: int, integrase; cI/cro, repressors; xis, excisionase; repl, replication; rec, recombination; ant, antirepressor; por, portal; terL, large subunit terminase; mhp/mtp, major head/tail protein; hya, hyaluronidase; hol, holin; lys, lysin.