Bury Town failed to hold on to their interval lead and finished the game with nine men in a turbulent second half in the Suffolk derby.
The game started brightly with Lee Smith forcing a good save from Andy Reynolds and Marcus Garnham making a fine save from Scott Mitchell.
Bury were playing on the break and from one of these Sam Reed was denied by Reynolds. Bury took the lead on 23 minutes when Lowestoft failed to clear a Danny Cunningham corner and Lee Smith set up Sam Reed who fired low into the net.
Lowestoft continued to press and Garnham did well to push a rising drive from Chris Henderson onto the bar.
Chances continued to be created at both ends with the hosts coming closest with a header by Greg Crane from an Adam Smith free kick.
Half Time: Lowestoft Town 0 Bury Town 1
Lowestoft had two early chances to get back on terms at the start of the second half as first Henderson and then Michael Frew both failed score from close range.
Bury were now on the back foot and on 56 minutes conceded a penalty for a foul an alleged Mitchell which was duly dispatched by Dale Cockrill.
Two minutes later Bury were reduced to ten men when skipper Tom Bullard was sent off for an alleged elbowing offence.
Bury were unlucky on 75 minutes when substitute Craig Nurse beat Reynolds but saw his effort roll onto the post to be cleared off the line.
Worse was to follow for Nurse three minutes later when rash tackle by him led to a second sending off.
With only nine men Bury were struggling to contain the rampant hosts and on 85 minutes they succumbed to a Scott Mitchell goal. Despite a courageous effort Bury were unable to get back on terms and the points went to the home side.
Full Time: Lowestoft Town 2 Bury Town 1