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Old 05-17-2017, 02:08 PM   #226
Brian Bushnell
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Location: Walnut Creek, CA

Join Date: Jan 2014
Posts: 2,707

No idea; those commands should be equivalent, unless the adapters.fa file is different. Can you post the full output of the command so I can see where the bases were lost? Also, you may want to add "stats=stats.txt" which will indicate which adapter sequences are being hit, and should be identical in both cases.
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