Table 2.

Observed frequency of the CRISPR/Cas9 adenosine insertion, specific to the GE rice line in rice noodle samples (n°12–17). The samples were composed of DNA extracted from rice noodles of the GE rice line and its parental rice line. The samples contained 100%, 99.9%, 99.1%, 0.9%, 0.1%, or 0% of the GE rice line. For each sample, the copy number associated with the GE rice line, measured using a 2-plex ddPCR method [16], is indicated (Table S1). The targeted high-throughput sequencing approach was performed in quadruplicate for each sample, allowing us to subsequently determine the allele frequency of the CRISPR/Cas9 adenosine insertion specific to the GE rice line. The associated depth of coverage of the reference at the position of this specific indel (bp 679,646) is indicated.

Rice noodle Sample Description			CRISPR/Cas9 Adenosine Insertion
Sample n°	GE Rice Line Content		Allele Frequency ~			Depth of Coverage ~
	Percentage	Copy Number	Detection	Percentage	StDev	Value	StDev
12	100	13,610.0	+	99.85	0.06	120,711	60,941
13	99.9	13,596.4	+	99.68	0.15	47,261	27,646
14	99.1	13,487.0	+	99.05	0.16	69,972	26,283
15	0.9	122.5	+	1.03	0.03	62,408	16,122
16	0.1	13.6	+	0.24	0.04	68,359	8826
17	0	0	−	0.00	0.00	67,906	37,437

~ For each sample, the average value of the 4 replicates and the associated standard deviation (StDev) are indicated.