Merging, Quality control and overlapping

Hello Armin,

I have made a mistake!!

432 - 464 = -32, not positive 32. (I messed up the math!) You know what this means... :sob:

464 bp amplicon  |----------------------------------------------|
216 bp read      |-------------------->
216 bp read                               <---------------------|
32 bp gap!!!                           ^^^

Your reads are not merging because they don't overlap at all, at that length.

If you trim at 260 bp on both forward and reverse, you will get
260+260-464 = 56 bp of overlap
or if you trim at 240 you will get
240+240-464=16 bp of overlap

Got to try some of these settings!

Colin

P.S. This is a reminder to myself to always double check the math :abacus:

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