maq output

[Ms@New]

Hi,

I want to have a distribution of number of mismatches in mapped reads from .map file. (how many of mapped reads have 1 mismatch, how may have 2, etc.)

it's a straight forward question, I'm guessing there is a a straight forward answer.
I found pileup and mapcheck, but none of them gives me the information that I need.

can any one help me with this?

Thanks

[adamdeluca]

mapview gives you the number of mismatches for each read (column 10 I believe)
then:
cut -f10 | sort | uniq -c

[Ms@New]

thanks adam