My Concerns...:( Early Pregnancy

Somewhat of a long story.. so bare with me. I found out I was pregnant October 20th. No issues that I knew of, but for several days I had minor cramping that was only continuing to get worse. so the night of Oct 24th I decided to go to the Emergency Room because I was starting to feel lower back pains and cramping on my right side.. at this point according to my LMP I'm supposed to be about 4 weeks and a couple days... so as I'm waiting in this room the nurse comes in and starts feeling all over my belly and as she's doing that another nurse comes in and starts to draw my blood everything's going pretty fast at this point. After they draw blood the nurse gets my vitals and all that stuff , which is odd bc they usually get that done first..well they decide that they want to send me in for an ultrasound. as I'm waiting to get sent for the ultrasound the doctor comes in and tells me my levels were really low for what I was supposed to be measuring , my levels were only 152 :(.. so I went in for the ultrasound and nothing showed on my ultrasound but a 2.1 cm cyst on my right ovarie .... they say it might me a corpus lutious or whatever it's called it's a cyst you get while pregnant to help support the baby as the placenta starts growing.. so I went home that night so discouraged thinking that I wasn't having a healthy pregnancy, well I had a drs appointment set for today the 26th when I went in they drew my blood and ran abunch of other tests.. my pregnancy test were still positive. I called in about an hour ago and my results were 331 hcg.. so my levels definitely doubled but yet I'm still in a lot of pain and can't seem to get comfortable they are going to call me later to see whether I need further blood work and possibly another ultrasound to see if we can find something and maybe figure out why I'm in so much pain and discumfort.. has this ever happened to any of you moms.. this is my 2nd baby and I never had any problems with my first... help :(