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Old 11-05-2010, 08:54 AM   #8
Location: Texas

Join Date: May 2010
Posts: 13

Hi All,
I generated a raw pileup for all reference positions using the samtools. An exmaple record for a non-SNP position is below:
chrY 11936864 G G 51 0 60 8 ,,.,,,.. "%`".B"`

This base has a coverage of 8. Which one of these fields (51,0,60) represent the base quality in this case? I am still confused about the ABI's SOLiD base quality!

Any input is greatly appreciated!
unagaswamy is offline   Reply With Quote