Table 2.

Key Parameters of the Genome Data Sets

Sample	No. Contigs	N50	Total nt	Average Size	Range	No. Wolbachia Contigs	Percentage Wolbachia Contigs (%)	Total nt	MLST
									gatB	coxA	hcpA	fbpA	ftsZ	wsp	Strain
DsimRC50	718	15,039	1,587,228	2,211	201–46,699	138	19.22	1,299,967	1***	1***	1***	1***	3***	23***	wCer2
DsimRC45	180	15,926	1,301,387	7,230	201–46,699	132	73.33	1,282,993	1***	1***	1***	1***	3***	23***	wCer2
DmelRC13A	11,216	669	6,837,724	610	200–42,979	39	0.35	29,928	1*	1*	1*	1*	3*	23*	wCer2
Ccap88.6	279,253	2,936	367,056,147	1,314	200–565,329	323	0.12	1,881,617	1*	1*	1*	1*	3*	23*	wCer2
									1***	1***	1***	1***	3***	23***	wCer2
									8**	84**	103**	160**	79**	335**	wCer1
RcerAS	580,642	1,144	428,039,057	737	200–38,978	1,625	0.28	2,596,908	101*	85*	40*	4*	22*	116*	wCer5

Note.—The percentage of Wolbachia contigs of the total assembly is indicative of the level of host or other bacterial sequences in the sequencing libraries, with a high percentage obtained only for DsimRC50 and DsimRC45. The mapping coverage of the Wolbachia MLST genes and wsp (presented as MLST allele numbers) is shown (*** high, ** moderate, * low) to demonstrate the relative titer of sequencing reads for each of wCer1, wCer2, wCer3, wCer4, and wCer5 potentially harbored by Rhagoletis cerasi or its recipient hosts. Please note that no traces of wCer3 and wCer4 were found in any libraries.

NB * denotes relative titer of the Wolbachia strains in each library.