Congrats on your new bike, i ride a 2010 Trek 2.1, great bike. Just hit the 2000 mile mark on it, i started cycling April this year. I'm already looking to upgrade to carbon fiber but for what the bike is its excellent. The soreness will go away, i was sore as well my first couple weeks, especially from the saddle. Hopefully the saddle they use on the 2011 2.1 is better than the 2010, one that came on the bike was terrible. Just keep racking up the miles and the soreness will go away and your cadence will increase. Have fun and ride safe. Flip the stem too, it'll look so much better.