Table 4.

Genome coverage used in comparative or separate clustering, and TRFi-TRM analyzes.

Species	Genome Size (bp)	Comparative Analysis		Separate Analysis		TRFi-TRM
		No. of Analyzed Reads Without Plastid Sequences	Genome Coverage	No. of Analyzed Reads Without Plastid Sequences	Genome Coverage	No. of Analyzed Reads	Genome Coverage
A. cepa	1.64 × 1010	435,527	0.004	1,129,077	0.010	30,000,000	0.277
A. ursinum	3.08 × 1010	866,802	0.004	1,365,659	0.007	60,000,000	0.295
A. sativum	1.59 × 1010	434,945	0.004	754,189	0.007	30,000,000	0.285