I just filed a bug regarding slow queries executed by replication thread are not being logged to the slow query log.
This is not a big deal but it is ugly little gotcha which I think few people know about. It is especially bad if you're using tools to analyze slow query log to find what queries take up the most resources on your server - in certain configurations replication load itself may be very significant contributor.
But even if you do not, as I wrote in the bug report it is quite handy to have this information our where as query times on master and slave can be different in a lot of circumstances.
One more thing to consider - slow replication queries also identify replication lag, ie if you have query which ran 10 seconds on the slave and …
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