| true | Use criteria |
| -100.0 | Minimum +1 XCorr |
| -100.0 | Minimum +2 XCorr |
| -100.0 | Minimum +3 XCorr |
| -100.0 | Minimum DeltCN |
| 1 | Minimum charge state |
| 3 | Maximum charge state |
| 0.0 | Minimum ion proportion |
| 1000 | Maximum Sp rank |
| -0.01 | Minimum Sp score |
| Include | Modified peptide inclusion |
| Any | Tryptic status requirement |
| true | Multiple, ambiguous IDs allowed |
| Ignore | Peptide validation handling |
| Sequences must include all of |
| Sequences must include pattern |
| Sequences can contain none of |
| Preceding residue must be one of |
| C terminal residue must be one of |
| 7 | Minimum sequence length |
| 100 | Maximum sequence length |
| 0 | Sequence completeness required |
| XCorr | Purge duplicate peptides by protein |
| false | Include only loci with unique peptide |
| true | Remove subset proteins |
| Ignore | Locus validation handling |
| K12] | Exclude protein descriptions matching |
| 0 | Minimum modified peptides per locus |
| 10 | Minimum redundancy for low coverage loci |
| 1 | Minimum peptides per locus |
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