It's been a while since I had to do this, but if I remember correctly, you use mk-table-checksum against the master, and use the --replicate option. This writes checksum data for both master and slave tables. Then you run mk-table-sync --sync-to-master from the slave, which will get your slave rows consistent by updating rows in the master such that they replicate through to the slave.
As I say, my memory of this might be shaky, so read the docs for the tools to make sure you understand what they're doing, and test this in your test environment.
If your dataset isn't huge, you might be best to shut down for long enough to take a copy of the mysql data directory on the master and recreate the slave as this is the safest way to ensure you definitely get a consistent replica. If you're able to use LVM snapshots then even better - but this won't be possible unless you've configured your filesystems with this in mind.