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Old 07-13-2016, 11:28 PM   #9
nucacidhunter
Jafar Jabbari
 
Location: Melbourne

Join Date: Jan 2013
Posts: 1,186
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DNA migration speed and hence calculated size is affected by presence of salts and protein in the sample. For fair comparison fragmented input DNA and PCR product has to be resuspended or eluted in the same buffer.

If you clean the PCR product with lower ratio of bead to amplicon (for instance 0.65x) short library fragments below 300bp will be cut off and that will shift the remaining library fragments peak to higher value. But I do not think that is what you want and is not advisable as it will reduce library diversity and yield.
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