Fig. 3.

(A) Scheme of the de novo based pipeline to identify possible spliced peptides. (B) The splicing gap in relation to the number of TagPep matches. The number of TagPep matches is the number of returned hits with a splicing gap shorter than a given value. Hits with the same splicing position and splicing gap are merged and counted as one hit. (C) Distribution of 8–14-mer peptides predicted by NetMHCpan as binders and nonbinders among the DeNovo_spliced and UniProt peptides identified in Mel16, Mel15, RA957, and Fib samples, and in addition also LM_spliced peptides.