Table 3. Sequencing summary statistics for libraries.

Protocols are the shorthands used in Table 2. Reads indicates the total number of reads, and Mapped the total number of reads that mapped at least once to either genome. Experiments 2 and 3 were run in a single HiSeq lane each. Yield estimates were generated by adjusting Qubit High Sensitivity DNA readings by the average fragment size as measured by Bioanalyzer.

Expt	Protocol	% D. virilis	Yield	Total reads	Mapped reads
2	CT	0%	6.5 fmole	3,803,843	3,374,520 (89%)
2	”	5%	15.7 fmole	4,372,738	4,164,781 (95%)
2	”	10%	47.4 fmole	10,013,087	9,527,023 (95%)
2	”	20%	17.8 fmole	4,781,463	4,317,101 (90%)
2	TotS	0%	176.8 fmole	3,281,134	2,930,058 (89%)
2	”	5%	170.2 fmole	2,498,134	2,237,330 (90%)
2	”	10%	102.5 fmole	5,777,523	5,424,366 (94%)
2	”	20%	119.9 fmole	6,068,996	5,740,496 (95%)
2	TruS	0%	2,401.0 fmole	67,560,511	64,024,881 (95%)
2	”	5%	2,001.1 fmole	23,370,854	22,589,083 (97%)
2	”	10%	2,174.2 fmole	39,454,390	38,093,763 (97%)
2	”	20%	2,379.2 fmole	35,265,536	34,304,792 (97%)
2	SS	0%	34.3 fmole	2,439,518	2,297,087 (94%)
2	”	5%	59.6 fmole	2,550,023	2,419,889 (95%)
2	”	10%	67.9 fmole	2,534,628	2,444,568 (96%)
2	”	20%	39.8 fmole	2,504,340	2,389,850 (95%)
3	SS—2.5×	0%	104.4 fmole	15,769,915	14,393,959 (91%)
3	”	1%	124.7 fmole	21,349,748	20,084,131 (94%)
3	”	5%	113.0 fmole	17,047,120	16,329,641 (96%)
3	”	10%	103.5 fmole	23,762,232	22,372,562 (94%)
3	”	20%	123.8 fmole	20,809,781	20,041,548 (96%)
3	SS—5×	0%	59.4 fmole	19,214,155	17,324,598 (90%)
3	”	1%	58.6 fmole	23,832,274	22,364,220 (94%)
3	”	5%	65.4 fmole	18,149,452	17,157,450 (95%)
3	”	10%	28.8 fmole	15,821,419	14,869,864 (94%)
3	”	20%	57.2 fmole	22,466,345	21,620,603 (96%)