Table III

Comparison of distinct peptides per protein by algorithm

Number of proteins with n distinct peptidesPercentage of proteins with n distinct peptides
>221>221
%
Mascot: expectation, 1% MS2 FDR935335731471737
OMSSA: expectation, 1% MS2 FDR1,435391899531433
X! Tandem: expectation, 1% MS2 FDR1,008338743481636
Sequest: probability, 1% MS2 FDR926341814461741