Vibration/noise

2003 Toyota Tacoma 4X4 V6 automatic tranny 110000 miles
Slight vibration when exceleration begins (then subsides) and again when stopping. Noise is very apparent when slowing down (sounds like the noise oversized tires would make on the hwy) but when a hard stop is made at almost sounds like "jake brakes" on a semi truck and a vibration comes from the floor and slightly from the front end. I also noticed a "clicking sound once in a while coming from under the hood, but it is intermitent. New tires and alignment about a month ago, timing belt replaced with 100000 service. Also as a side note, seems to lose a little power going up slght to steep grades (canyon hwys).