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-   -   bowtie paired end mismatches (http://seqanswers.com/forums/showthread.php?t=12238)

madsaan 06-22-2011 08:26 AM

bowtie paired end mismatches
 
Hello,

If we specify -v 2 for a paired-end read,does bowtie allow two mismatches for the pair or is it for each read?

Thanks.


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