Table 2.

Bait characterization for CryptoCap_100k and CryptoCap_73k by mapping all baits to all available reference genome sequences. Mean depth, percent breadth of genome coverage, and percentage of baits mapped to each species’ genome sequence. We break down by species included and excluded from bait design.

		CryptoCap_100k 100,000 baits (This study)			CryptoCap_73k 68,966 baits (Khan and Alves-Ferreira et al., 2024)
Species Information		Mean depth	% Breadth of coverage	% Baits mapped	Mean depth	% Breadth of coverage	% Baits mapped
Species included in CryptoCap_100k bait design	C. parvum IOWA II	1.086	97.55	84.98	0.909	90.89	100
	C. parvum IOWA ATCC	1.089	97.83	85.41	0.907	90.63	99.96
	C. hominis UdeA01	1.095	97.75	85.36	0.904	90.33	99.31
	C. hominis 30976	1.097	97.88	85.64	0.903	90.25	99.39
	C. cuniculus UKCU2	0.853	77.86	70.09	0.751	74.93	86.50
	C. tyzzeri UGA55	1.074	96.75	83.66	0.900	89.95	98.75
	C. meleagridis UKMEL1	0.997	91.42	80.45	0.793	79.23	91.27
	C. viatorum (partial inclusion) ABER_CVIA_1.0	0.714	66.68	60.99	0.529	51.40	64.36
Species not included in CryptoCap_100k bait design	C. andersoni 30847	0.008	0.52	1.08	0.005	0.45	0.87
	C. baileyi TAMU-09Q1	0.030	2.84	3.45	0.025	2.43	3.70
	C. muris RN66	0.008	0.60	1.12	0.005	0.47	0.91
	C. ubiquitum 39726	0.262	25.39	24.81	0.239	23.86	31.69