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01-04-2011, 07:18 AM
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Junior Member
Location: France Join Date: Apr 2010
Posts: 1
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soapaligner - settings -M/-v
Dear all,
I have problem to understand the settings "-v" and "-M" of soap. Is somebody can help me to understand these options? For example, what I don't understand:  1-Why do I get reads rwith missmatch using the setting "-v0"? 2-Why do I get only the reads with 1 missmatch using the setting "-M1"? I thought that I should get reads containing 0 or 1 missmatch... Thank you in advance. 
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