Table 2. Analysis of DNA methylation patterns under salinity stress with respect to control condition in the shoot and root of seedlings of rice varieties, IR29, Nipponbare (Nipp), Pokkali (Pokk), and Geumgangbyeo (Geum).

Description of Pattern	Class	Banding Pattern				Shoot				Root
		Control		Salinity
		HpaII	MspI	HpaII	MspI	IR29	Nipp	Pokk	Geum	IR29	Nipp	Pokk	Geum
	A	1	0	1	0	20	62	42	17	3	7	4	3
No change	B	0	1	0	1	108	44	30	12	54	55	54	51
	C	1	1	1	1	505	541	287	775	1238	1168	1131	1240
	D	0	0	0	0	184	180	373	282	188	131	153	153
	Total					817(50.0%)	827(50.6%)	732(44.9%)	1086(66.7%)	1483(90.9%)	1361(85.8%)	1342(84.8%)	1447(88.7%)
	E	1	0	1	1	62	70	17	80	3	17	21	5
	F	0	1	1	1	136	53	42	105	39	26	28	30
Demethylation	G	0	0	1	1	85	27	19	107	34	49	52	43
	H	0	1	1	0	25	37	30	16	3	7	3	4
	I	0	0	1	0	50	49	43	56	10	13	5	5
	J	0	0	0	1	127	50	36	44	22	16	22	17
	Total					485(29.7%)	286(17.5%)	187(11.5%)	408(25.1%)	111(6.8%)	128(8.1%)	131(8.3%)	104(6.4%)
	K	1	1	1	0	18	142	202	30	7	12	22	7
	L	1	1	0	1	113	98	75	16	7	7	38	29
Methylation	M	1	1	0	0	29	96	134	17	21	46	37	32
	N	1	0	0	1	77	43	17	21	1	5	0	0
	O	1	0	0	0	42	71	217	24	0	5	7	2
	P	0	1	0	0	53	71	68	27	2	21	5	10
	Total					332(20.3%)	521(31.9%)	713(43.6%)	135(8.2%)	38(2.3%)	96(6.1%)	109(6.9%)	80(4.9%)

A score of 1 and 0 represents presence and absence of bands, respectively. Values in parentheses indicate percentage of bands in each pattern which was determined by dividing number of bands in each pattern by total number of bands in all three patterns.