For pain while running: stretch, massage, and lose weight, all the while making sure to not continue running when pain hits. Getting into more details about what to target requires much more specific knowledge and examination of your specific problem, some of which I don't have the knowledge for. But most problems like this do come from over-exertion, lack of mobility, too much tension, and being overweight

I would honestly recommend not to do something like jogging. While it's good if you want to do it, it is one of the most unimaginative, unhealthy, and boring ways to exercise. If you have any extra time and money you can take up things like hiking and racquetball, which will pay substantially greater dividends physically, mentally, and even socially