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Old 07-12-2019, 12:56 PM   #4
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Location: US

Join Date: Apr 2013
Posts: 222

Originally Posted by SNPsaurus View Post
I'm curious why you would select 2x300 for a 290 bp amplicon. Did you want to merge the paired reads for extra-high quality sequence?
I am sorry. I am not sure if I understand you.

These days MiSeq 300bpX2 is popular (default) and long reads also better for downstream analysis such as taxonomic assignment . It doesn't matter what you amplicon length is. In my case, I don't have to join them. I can choose only use Forward sequencing data (normally better than reverse sequencing data). Or I can choose to use F and R without joining or joining.

Can you tell me what you would select? if you don't select 2X300bp?
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