Table 4. Results of BLASTn and Phylogenetic Intersect Analysis (PIA) showing the number of reads BLASTED after duplicate removal using Prinseq, the number of metagenomic BLAST hits on the sample species, Post PIA filtering hits at 95% coverage (>0.2 taxon diversity) and 99% coverage (>0.2 taxon diversity).

Sample	# Reads	BLAST hits target species	Post-PIA hits (95%) cvg.	Post-PIA hits (99%) cvg.
Barley1a	8433351	73	2	2
Barley1b	2855828	20	0	0
Barley2a	6525081	64	0	0
Barley2b	3163453	18	0	0
Barley3a	1415373	13	0	0
Barley3b	4001313	9	0	0
Barley4a	6019807	40	0	0
Barley4b	242478	1	0	0
Barley5	2561257	22	1	1
Barley6	2283844	4	0	0
Barley7	1741206	7	0	0
Barley8	409890	3	0	0
Grape1	6157219	32	0	0
Grape2	8477672	28	0	0
Grape3	6315327	755	2	1
Grape4	5685642	873	3	3
Grape5	8672311	744	1	0
Maize1	4911944	2	0	0
Maize2	7254256	1	0	0
Maize3	88796	0	0	0
Maize4	8530317	71	0	0
Maize5	5396523	128	1	1
Maize6	6446171	74	0	0
Maize7	6479527	2	0	0
Maize8a	27518813	2714	54	37
Maize8b	14715580	3096	114	82
Rice1	390515	0	0	0
Rice2	500538	0	0	0
Rice3	1783367	13	0	0
Rice4	499372	64	0	0
Rice5	4953182	0	0	0
Rice6	567506	0	0	0
Rice7	6101994	166	0	0
Rice8	447690	0	0	0
Rice9	301980	1	0	0
Rice10	3425508	99	0	0
Rice11	592182	26	0	0
Rice12a	2608916	150	0	0
Rice12b	1476971	66	0	0
Rice13	396830	217	0	0
Rice14	1096766	99	0	0
Rice15	595556	289	0	0
Rice16	338135	111	0	0
Rice17	373420	47	0	0
Blank_barley1	3754102	50	0	0
Blank_barley2	5390039	12	0	0
Blank_barley3	567952	24	0	0
Blank_grape1	2053566	13	0	0
Blank_maize1	2687850	371	0	0
Blank_maize2	10293162	11	0	0
Blank_rice1	250044	0	0	0