Genetic diversity among INERA maize inbred lines with single nucleotide polymorphism (SNP) markers and their relationship with CIMMYT, IITA, and temperate lines

Table 2 Top ten SNPs with significantly different allele frequencies among different germplasm origins

SNP number	SNP name	chr	Position	Allele	Allele frequency		Allele frequency difference
SNP number	SNP name	chr	Position	Allele	I	II	Allele frequency difference
INERA (I) versus Temperate (II)
54	PZB01062.3	1	56846728	A	0.25	0.8	0.55
70	PHM12633.15	1	1.03E + 08	A	0.99	0.4	0.59
187	PZA00172.12	2	4177515	A	0.14	0.8	0.66
245	PZA00637.6	2	1.7E + 08	A	0.35	0.95	0.6
282	PZA01352.5	2	2.26E + 08	A	0.86	0.15	0.71
310	PZA00297.2	3	39992968	C	0.24	0.78	0.54
594	PZA00643.13	5	91096945	G	0.91	0.2	0.71
779	PZA02854.13	7	1.38E + 08	A	0.32	0.9	0.58
902	PHM11946.19	9	9886093	A	0.26	0.9	0.64
INERA (I) versus CIMMYT (II)
234	PZA01537.2	2	1.51E + 08	A	0.78	0.27	0.51
254	PZA00824.2	2	1.94E + 08	A	0.92	0.43	0.5
498	PZA02479.1	4	2.18E + 08	A	0.57	0.09	0.48
628	PHM532.23	5	1.93E + 08	A	0.98	0.47	0.51
671	PHM2551.31	6	85125455	A	0.68	0.2	0.48
689	PZA01591.1	6	1.25E + 08	A	0.08	0.57	0.49
871	PHM12749.13	8	1.55E + 08	C	0.12	0.59	0.48
876	PZA00838.2	8	1.59E + 08	A	0.15	0.67	0.51
1034	PZA01073.1	10	1.45E + 08	A	0.36	0.93	0.57
1046	PZA00311.5	-	-	A	0.08	0.59	0.51
INERA (I) versus IITA (II)
344	PZB02179.1	3	1.58E + 08	A	0.8	0.27	0.53
404	PHM2423.33	3	2.28E + 08	A	0.25	0.85	0.6
469	PZA03116.1	4	1.66E + 08	A	0.71	0.17	0.54
522	PZA01887.1	5	656148	A	0.05	0.6	0.55
865	PZB01454.1	8	1.46E + 08	A	0.19	0.75	0.56
998	PZB00409.1	10	84002430	A	0.13	0.69	0.56
1002	PZA02398.2	10	99471436	A	0.06	0.73	0.67
1033	PHM5435.25	10	1.44E + 08	A	0.25	0.82	0.57
1036	PZA01001.2	10	1.47E + 08	A	0.33	0.86	0.53
1055	PZA02474.1	-	-	A	0.69	0.07	0.62

ISSN: 2730-6844