how can i interpret the result of mpileup of samtools?

[dkrtndhkd]

for example,
7 151843760 T 33 .$,$,....,.,......,.,..,..,,..,,,.^g, >@FDCDDJEIDDEIHGJAJJIEJJFEIHDDDCC

I know the col1=chromosome, col2=base position col3=reference seq col4=depth

but what's the meaning of col5 and col6?

i thought that col4=match result of each read compared with reference and col5=quality score of each base.

then what's the meanig of each characters of col5 - .,$^g ...etc

somebody please tell me the meaning or give me link about the meaning!

thank you

[etorstenson]

Have a look at the pileup documentation page. Each of those characters (or character groups, in some cases) represent a base or a base quality from the reads that passed your filter.

http://samtools.sourceforge.net/pileup.shtml