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Old 06-24-2016, 12:07 PM   #125
fkrueger
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Location: Cambridge, UK

Join Date: Sep 2009
Posts: 614
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To 1) The way the sequencing normally works is that you sequence the first base after the 5' adapter, then you sequence the fragment of interest and then you sequence into the adapter on the 3' end. You don't just get the keep the sequences that appears longer and juicier, but you need to keep the sequence of the fragment you wanted to sequence, here the 7bp. Maybe this sequence is just a not very representative example of your entire run because 7bp is also not a typical length of miRNA. I would suggest you run Trim Galore on the file once and then look at the sequence length distribution to see if the majority of the sequences is between 20 and 24bp long.

To 2) I can add it to my list, not quite sure if when I can address it though (we've got a Brexit to stomach right now...)

Cheers, Felix
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