Comparative whole genome re-sequencing analysis in upland New Rice for Africa: insights into the breeding history and respective genome compositions

Rice

Table 2 Polymorphic sites between WAB 56–104 and CG 14

Chr	Nucleotide polymorphism		Insertion		Deletion		Total
Chr	SNP	MNP	WAB56–104	CG 14	WAB56–104	CG 14	Total
1	360,381	11,386	1972	20,132	2804	24,478	49,386
2	316,206	10,336	1564	17,498	2320	21,101	42,483
3	306,733	9299	1293	16,964	1879	20,338	40,474
4	270,022	9601	1370	14,362	2061	17,316	35,109
5	251,323	8021	1377	13,075	2055	15,560	32,067
6	271,081	9447	1413	14,354	1997	17,557	35,321
7	254,203	8756	899	14,537	1314	17,184	33,934
8	221,116	7317	1131	11,605	1632	14,365	28,733
9	190,775	6350	666	10,347	893	12,284	24,190
10	201,301	7146	1771	9125	2600	11,457	24,953
11	238,964	8611	1884	11,917	2360	14,295	30,456
12	203,812	7230	1527	10,421	2084	12,631	26,663
Un	538	9	3	20	5	32	60
Sy	2363	59	7	113	2	119	241
Total	3,088,818	103,568	16,877	164,470	24,006	198,717	404,070