We would hope that you are crossing over the subwoofer at a low enough frequency so that the sound emitted by it is non-directional. This would be at about 50Hz or below. Remember, the job of a subwoofer is to compliment the bass reproduced by your main speakers. If your main speakers are somewhat small however, then your crossover frequency will be much higher (possibly 80-120Hz depending on your speakers) and placement will then be more limited.
From an acoustical standpoint, placing a subwoofer in a room is not as simple as it may appear. Every room has its own acoustical signature. This will create natural resonances (frequencies that are reenforced by the room), and nulls (frequencies that cancel one another due to the room dimensions.
It is possible to make the overall bass response much worse when adding a subwoofer if it is not integrated properly. The topic of mating subwoofers is too long to cover in this short space however, I would recommend searching for some of the excellent articles written about this topic online.
I will say though, that most subwoofer(s) placement (being crossed over at a frequency of 50Hz or below) usually occupies the first one third of the listening environment. This gives latitude in obtaining smooth frequency response. If on the other hand your main speakers are somewhat small or do not have 'deep' bass, then it is recommended to place the speakers in front of the room. Usually, the sub(s) will sit on either side of the main speakers or directly behind them. This is done to maintain the best phase response possible.
I hope I have not confused you or even worse thrown a wrench in your home theater plans, it was not my intention. I just want to give you the most accurate information so you can obtain the best possible sound from your system. If you have any questions, please feel free to contact me.
Good luck
