Flickering lights on my 1998 Honda Civic ex, why?!

All my lights on my car starts Flickering when I m on the freeway(sometimes), when I turn my car on in the mornings(most of the time). I went to autozone to check my battery and the alternator, and said my battery was not good so I changed it but I still have the same problem. I also checked the fuse and it s good also. I don t know if it has something to do with the engine or transmission because my car has over 200k mileage and you can feel the transmission or I assume it pushes forward itself sort of but it doesn t move, it feels like a bump. Like it hits something inside the engine. Also one more thing, my car lights deemed when I step on the break. Does anyone have any one have an idea of what might be wrong with my car?

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