engine bogs down/sputters on 2002 Dodge Intrepid

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we replaced the water pump and vehicle now bogs down. it sounds as if we are giving and letting off the gas.we replaced the cam sensor, but still the same. we even took apart to confirm timing was right, and it was.
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i did . both times it came up with cam sensor and # 1 bank problem. replaced the sensor, and didn't think I had to address the bank problem, since you don't have to take off the chain for the cam
make sure you have the 3 spots(copper color) on the chain in the exact location. After replacing the pump, we had to replace the complete timing chain assembly due to a new desig. Good Luck