So, I ended up size-selecting my libraries, and then I used Bioanalyzer to look at the curve -- and it was exactly the same. Again, the desired peak at 300 bp and the higher MW peak centered around 1400 bp. So, I took Philip's suggestion (seen on other posts) to heat up the library to 95 degrees, cool slowly and then ran on an agarose gel (we don't have a Bioanalyzer in house...), and finally, I only saw one band at exactly the desired size. Not sure why my bubble products/concatenamers/daisy chains (whatever they are) have such a different pattern from others seen on this forum, but there you go. I guess the denaturing during quantification via qPCR and during the actual sequencing should mean these products will have no downstream effects.
Submitting for sequencing tomorrow, so hopefully I'll have good results to report back to you in a month or so!
Submitting for sequencing tomorrow, so hopefully I'll have good results to report back to you in a month or so!
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