Different ref_count and alt_count from samtools mpileup

[ysbioinfo]

Hi, I want to get the allele frequency of indels from Strelka using samtools mpileup, but I found there are some difference in ref_count and alt_count between these two methods. I wonder if Strelka has discard any low quality base for indel calling. The command I used for samtools mpileup is: -AQ0 to get all reads (quality > 0). I want to know how to get the same (or closest) result as Strelka using samtools. Thanks! Yang