Table 1.

Results of the dataset with eight pairs of overlapping peptides

Pair no.	Sequence	True peptide info				BPDA2d		BPDA		msInspect
		Mass(Da)	RT(s)	CS	Intn	CS	Intn	CS	Intn	CS	Intn
1	DYSYER	831.34	141	1–2	0.0004	1–2	0.0003	1–2	0.0008	NA
	DENGELR	831.37	127	1–2	0.0006	1–2	0.0006	1–2	0.0005	1–2	0.001
2	VVFMSLCK	925.48	414	1–2	0.0046	1–2	0.0033	1–2	0.0043	1–2	0.0050
	LLLPCLVR	925.58	456	1–2	0.0054	1–2	0.0044	1–2	0.0056	1–2	0.0068
3	MTPELMIK	961.50	323	1–3	0.0001	1–3	0.0001	1–3	0.0001	1–2	0.0001
	IAVMLMER	961.51	340	1–3	0.0002	1–3	0.0002	1–3	0.0003	1–3	0.0003
4	ACCLLCGCPK	1009.42	302	1–3	0.0011	1–3	0.0008	1–3	0.0023	1–3	0.0024
	MLCAGIMSGK	1009.48	314	1–3	0.0008	1–3	0.0009	1–3	0.0014	1–3	0.0020
5	AYDPDYER	1027.42	174	1–3	0.0077	1–3	0.0078	1–3	0.0081	NA
	EEPSGDGELP	1028.43	194	1–3	0.0307	1–3	0.0344	1–3	0.0418	1–3	0.0382
6	NGNEEGEER	1032.41	75	1–3	0.4612	1–3	0.5110	1–3	0.7140	1–3	0.7284
	TEGEEDAQR	1033.43	79	1–3	0.1537	1–3	0.1065	NA		NA
7	MLANLVMHK	1055.56	312	1–3	0.0019	1–3	0.0018	1–3	0.0017	1–3	0.0023
	LTLDLMKPK	1057.62	321	1–3	0.0009	1–3	0.0010	1–3	0.0008	NA
8	LLPPLLQIVCK	1235.77	561	1–4	0.1768	1–4	0.1755	1–4	0.1405	1–4	0.1193
	LMLFMLAMNR	1238.63	577	1–4	0.1537	1–4	0.1516	1–4	0.0779	1–4	0.0943

CS and Intn denote detectable charge states and normalized intensity, respectively.