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-   -   Bowtie mapping with more mismatches (http://seqanswers.com/forums/showthread.php?t=8689)

mapper 01-05-2011 02:11 AM

Bowtie mapping with more mismatches
 
We have 50bp reads and want to map with bowtie with 6mm. However it seems that only 3 mm are allowed at max. I have tried to look on net and many people suggested to use -e option..I am not sure what would be the best parameters to map SOLiD 50bp reads with 6mm ? Can anyone help on this?


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