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Hi Karen,
When your muscles have been tight for a long time, you get a build up of toxins (metabolites etc) in them. When you start to stretch out the muscles and they begin to relax, the toxins are released. This can cause you to feel achey, fluey, you may get headaches, and feel generally rough. Rotten I know, but it's only temporary and will calm down as your muscles develop strength....keep going! Maybe just be a little more gentle on yourself, don't stretch with too much vigour!