One lives with his wife and children among friends, the other lives in isolation with his taciturn brother. One has his fellow churchgoers take up a collection on his behalf, while the other has no one think much about him except some curious kids.
But dig deeper, and Tom and Boo start to look more similar: both are disabled in some way (Tom's crippled arm, Boo's crippling shyness), both are innocents with a bad reputation, and both are compared to mockingbirds. And they both serve as scapegoats for their community, being blamed for things they didn't do. This pairing suggests that the people a community includes may be less important than those whom it excludes.