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Old 11-05-2013, 03:28 AM   #3
Devon Ryan
Location: Freiburg, Germany

Join Date: Jul 2011
Posts: 3,480

With bowtie2, you can either just use "grep AS:i:0" to get only perfect matches or just use the "--score-min 'C,0,-1'" option, which should do effectively the same thing.
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