SAG-QC: quality control of single amplified genome information by subtracting non-target sequences based on sequence compositions

Table 1 Number of target and non-target sequences in simulated SAG data

Target	Contamination		Proportion of contaminant sequence [%]
E. coli/M. magneticum	Pseudomonas	Delftia	Proportion of contaminant sequence [%]
1000	0	0	0
900	75	25	10
800	150	50	20
700	225	75	30
600	300	100	40
500	375	125	50
400	450	150	60
300	525	175	70
200	600	200	80
100	675	225	90
0	750	250	100

We utilized public bacterial sequences to simulate SAG datasets. We defined Escherichia coli and Magnetospirillum magneticum as target species in this simulation. We mixed their sequences with sequences of Pseudomonas and Delftia to simulate sequences of contaminated samples. The sequences were mixed in several proportions to simulate datasets with different contamination levels.

ISSN: 1471-2105