That sounds like it's just Delayed Onset Muscle Soreness (DOMS). That happens naturally after intense workouts. I usually get it about a day to day and a half after my leg workouts. It is usually just a sign that your body is repairing some muscle tissue and can last for a day or two.
I do a lot of cardio as well as lifting. I think if you keep up your cardio, which should increase circulation, you will most likely cut your recovery time down. In other words, I would do the routine and work through the pain. I also eat a lot of protien and consume a lot of amino acids, I find the BCAA's (Branched Chain Amino Acids) and Beta Alanine have helped me almost completely get rid of my DOMS.
I try to run 10-12 miles/week - 2-3 miles at a time, 13-19 minutes respectfully.
Hope all this helped.



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