Table 3.

Influence of adapter length on mitochondrial target enrichment specificity. (Three different libraries (A–C) were prepared and subjected to target enrichment for mtDNA with different adapter lengths. Basic results before and after enrichment (reads were downsampled to have the identical number of reads examined) show higher target enrichment specificity of libraries with short adapters with the settings used. Italics indicate that no significance can be given for these reports of fractions of the reads.)

library	barcodes (P5–P7)	adapter length during capture	indices during capture	all reads	aligned reads to mt	% endogenous	unique aligned reads to mt	unique % endogenous	average mt coverage	coefficient of variation
A.before	none	—	—	37 344	3	0.008	3	0.008	—	—
A.short	none	short	none	331 224	296 075	89.4	28 344	8.6	139	0.12
A.intermediate	none	intermediate	i7	331 224	240 086	72.5	27 256	8.2	130	0.15
A.long	none	long	i5 + i7	331 224	198 777	60.0	26 946	8.1	129	0.15
B.before	ATCGATT-GACTTAT	—	—	34 104	1	0.002	1	0.002	—	—
B.short	ATCGATT-GACTTAT	short	none	189 334	136 140	71.9	20 540	10.8	87	0.16
B.long	ATCGATT-GACTTAT	long	i5 + i7	189 334	112 560	59.5	20 313	10.7	84	0.19
C.before	GCTAGCC-CTAGGTG	—	—	33 780	2	0.006	2	0.006	—	—
C.short	GCTAGCC-CTAGGTG	short	none	125 406	89 368	71.3	13 421	10.7	54	0.18
C.long	GCTAGCC-CTAGGTG	long	i5 + i7	125 406	70 764	56.4	13 302	10.6	52	0.22