| Fragment | Denaturation | Circulation (×30) | Extension |
| TetR | 94˚C 5 min | 94˚C 30 s, 47˚C 30 s, 72˚C 1 min | 72˚C 10 min |
| ack | 94˚C 30 s, 50˚C 30 s, 72˚C 1 min | ||
| upsteam fragment | 94˚C 30 s, 52˚C 30 s, 72˚C 30 s | ||
| downsteam fragment | 94˚C 30 s, 52˚C 30 s, 72˚C 30 s | ||
| recombination confirmation | 94˚C 30 s, 50˚C 30 s, 72˚C 90 s |