I'm running a reverse transcription-pcr rxn for amplicon (bp) sizes 213, 332, 407, 508, 586, 734, and 676. All are optimized for annealing and extension. The variation in size when running a 2% agarose gel is roughly 20 bps. Could this just be software variation? I feel like this is acceptable but my boss wants it tighter. Is there a reference for acceptable margins of error on gels? I appreciate your input in advance.
Edited by RecklessTech, 29 November 2010 - 10:09 AM.