View Single Post
Old 07-17-2012, 12:38 PM   #2
Senior Member
Location: Halifax, Nova Scotia

Join Date: Mar 2009
Posts: 381

You can use PRINSEQ
As far as I remember you can tell the program to trim a certain amount of bases from either end.
You can also do this with Galaxy:

Prinseq may be better as you will retain your Q data.

If you wanted to sort your amplicons while you remove primers and adapters you could use jMHC
For this you need to know your primer sequence but you should be able to figure out what your primers were from your sequence.
JackieBadger is offline   Reply With Quote