river all in 9's full vs Q's full

[bhaley66]

This is the first hand i have ever posted. I was unable to post my converted hand due to not having enough posts. Can someone please convert it for me? I am pretty new to playing poker seriously, i have been reading on this forum quite a bit, and i need to know how you think this hand was played. I had no information on this guy since i had been multi-tabling, and had only been playing this table for a few minutes. Did i play it ok? What would you have done differently?

PokerStars No-Limit Hold'em, $0.02 BB (6 handed) - Poker-Stars Converter Tool from FlopTurnRiver.com

MP ($6.27)
Hero (CO) ($4.99)
Button ($1.91)
SB ($1.13)
BB ($2.33)
UTG ($1.57)

Preflop: Hero is CO with 9, 9
1 fold, MP bets $0.06, Hero calls $0.06, 3 folds

Flop: ($0.15) 6, Q, 6 (2 players)
MP checks, Hero bets $0.04, MP calls $0.04

Turn: ($0.23) 9 (2 players)
MP checks, Hero bets $0.10, MP calls $0.10

River: ($0.43) J (2 players)
MP bets $0.40, Hero raises to $0.80, MP raises to $5.74, Hero calls $3.99 (All-In)

Total pot: $10.01 | Rake: $0.49

Now when the turn came i just thought "oh ya i hope he hit his flush", then the river came i really expected that he had hit his flush...

{Edit: Added converted hand history, removed results. --spoonitnow}