Handling multiple mutations per gene per sample

[kw10]

I have some tumours that have multiple somatic missense or indels in the same gene. For example in ARID1A (below) one sample has 2 missense mutations and the other has a missense mutation and an indel. The totals given in the 'smg' output are 4 total mutations, however, the 4 mutations come from 2 patients out of 11, not 4 patients out of 11. Is this expected? Should I remove one mutation if there are multiple mutations in a gene in one patient?

#Gene Indels SNVs Tot_Muts FDR_FCPT FDR_LRT FDR_CT Expression
ARID1A 3 1 4 1 0.00753488134092317 0.00667411743318025 expressed

Thanks!