Table 2. Characteristics of Ψs in telomere and centromere regions.

Chromosomes		Average frequency of Ψs in the 80 resequenced accessions			Length (bp)			Exon No.			GC%
		Centro	Telo	t-test, P d	Centro	Telo	t-test, P d	Centro	Telo	t-test, P d	Centro	Telo	t-test, P d
1	Ψs a	0.124	0.082	9.8E-06, ***	943	1363	9.8E-06, ***	4.2	4.96	0.05 *	0.42	0.44	2.6E-05, ***
	Reference b	–	–	–	1141	1287	0.065	5.51	5.74	0.32	0.44	0.45	0.0001, ***
	t-test, P c	–	–	–	7.7E-06	0.14	–	6.7E-05	0.005	–	2.4E-05	1.8E-10	–
2	Ψs	0.182	0.091	9.8E-06, ***	834	1178	0.001, ***	3.44	4.32	0.05 *	0.43	0.44	0.02, *
	Reference	–	–	–	932	1193	8E-04, ***	4.86	5.24	0.27	0.446	0.154	0.02, *
	t-test, P	–	–	–	0.16	0.43	–	0.02	0.01	–	0.001	2E-06	–
3	Ψs	0.179	0.080	9.8E-06, ***	877	1257	2.1E-06, ***	3.5	4.22	0.028 *	0.43	0.44	0.26
	Reference	–	–	–	998	1214	0.03, *	4.2	5.54	0.009, **	0.44	0.45	0.001, ***
	t-test, P	–	–	–	0.14	0.18	–	0.11	4E-06	–	0.47	1E-18	–
4	Ψs	0.144	0.075	9.8E-06, ***	961	1281	0.002, **	3.91	4.52	0.12	0.43	0.44	0.01, **
	Reference	–	–	–	1144	1272	0.03, *	5.6	5.6	0.46	0.43	0.45	3E-08, ***
	t-test, P	–	–	–	0.03	0.46	–	4E-04	0.008	–	0.02	5E-05	–
5	Ψs	0.138	0.071	9.8E-06, ***	801	1270	2.4E-08, ***	3.43	5.18	7.1E-05, ***	0.44	0.44	0.34
	Reference	–	–	–	1099	1227	0.05, *	5.3	5.4	0.44	0.44	0.45	0.001, ***
	t-test, P	–	–	–	0.001	0.21	–	0.001	0.05	–	0.22	1E-11	–
Average	Ψs	0.153	0.079	9.8E-06, ***	885	1216	3.6E-22, ***	3.70	4.54	5.2E-07, ***	0.43	0.44	0.001, ***
	Reference	–	–	–	1064	1240	9E-07	5.18	5.53	0.06	0.44	0.45	7E-14
	t-test, P	–	–	–	5E-05	0.10	–	3E-08	5E-08	–	1E-05	4E-47	–

Centro, centromere; Telo, telomere; ^a allelic Ψ loci, intact ORFs in Col-0 were used; ^b all allelic non-Ψ loci in these regions; ^c comparison betweenΨs and reference genes; ^d comparison between telomere and centromere regions; *P<0.05, **P<0.01, ***P<0.001.