Accepted answer
Answer first: the counter-ion is part of the mass you paid for and none of the peptide you wanted, and it can run to several per cent or more.
Net peptide content — the fraction of gross mass that is the peptide itself — is the figure that folds water and counter-ion together and is what you should ask for if you ask for anything.
Worked reconciliation: a 10 mg vial at four per cent water and eight per cent trifluoroacetate contains 10.0 × 0.88 = 8.8 mg of peptide, a twelve per cent shortfall against label with a perfectly clean purity figure.
Peptides from reverse-phase purification with trifluoroacetic acid mobile phases are isolated as trifluoroacetate salts, which is standard synthesis practice.
The caveat is that a purity figure is completely blind to counter-ion content, and the two are routinely conflated.
Ask for net peptide content. It folds water and counter-ion into one usable number.
edited 4 Dec 2025 by tare_weight — tightened the wording; no substantive change