Table 2.

Mean accuracies of classifying different types of reads for the V3-V5 primer pair

Read	RDP50	RDP80	SINTAX50	SINTAX80	TOP	BTOP
r1	55.1	49.34	54.12	43.9	52.02	52.02
dj	59.34	57.9	59.82	46.4	55.08	53.46
djref	59.32	57.92	60.08	46.54	54.94	54.04
io	59.38	57.34	59.5	46.24	0	53.08
ioref	59.52	57.7	59.56	46.36	54.94	54.86

Three types of reads, first (r1), directly joined (dj), and inside-out (io) reads, were classified to the genus level by six classification methods using MiSeq 2 × 300 bp data. The directly joined and inside-out reads were also compared to the corresponding rearranged references (djref and ioref) respectively for classification