Table 1 The 20 most differentiated single nucleotide polymorphisms between AF-E (n = 1,515) and Madagascar (n = 24), based on alternate allele frequency. REF = 3D7 reference strain nucleotide, ALT = alternate nucleotide.

From: Disparate co-evolution and prevalence of sulfadoxine and pyrimethamine resistance alleles and haplotypes at dhfr and dhps genes across Africa

Genomic Position	REF	ALTs	East Africa ALT Freq.	Madagascar ALT Freq.	F_ST	Gene ID	Gene name	Amino acid change	Mutation type
Pf3D7_05_v3:1141578	A	C	0.00	0.92	0.91	PF3D7_0527400			3’ UTR variant
Pf3D7_05_v3:1145481	C	A	0.00	0.92	0.91	PF3D7_0527500	HIP		3’ UTR variant
Pf3D7_05_v3:1139023	A	G	0.01	0.92	0.90	Intergenic region: PF3D7_0527300 - PF3D7_0527400			Intergenic region
Pf3D7_05_v3:1140984	T	G	0.00	0.90	0.89	PF3D7_0527400		Leu120Val	Non-synonymous
Pf3D7_05_v3:1140987	G	A	0.00	0.90	0.89	PF3D7_0527400		Asp121Asn	Non-synonymous
Pf3D7_05_v3:1140988	A	G	0.00	0.90	0.89	PF3D7_0527400		Asp121Gly	Non-synonymous
Pf3D7_06_v3:1215233	G	A	0.87	0.00	0.87	PF3D7_0629500	AAT1	Ser258Leu	Non-synonymous
Pf3D7_06_v3:1214259	C	G	0.84	0.00	0.84	PF3D7_0629500	AAT1		Intron variant
Pf3D7_06_v3:1214350	G	T	0.86	0.04	0.80	PF3D7_0629500	AAT1	Ile552Ile	Synonymous
Pf3D7_05_v3:1151093	C	A	0.00	0.81	0.81	Intergenic region: PF3D7_0527700 - PF3D7_0527800			Intergenic region
Pf3D7_08_v3:546841	T	A	0.78	0.00	0.78	PF3D7_0810700		Lys68Asn	Non-synonymous
Pf3D7_05_v3:1133912	T	A	0.00	0.77	0.76	PF3D7_0527200	USP14	Thr281Thr	Synonymous
Pf3D7_08_v3:549993	A	G	0.81	0.04	0.75	PF3D7_0810800	PPPK-DHPS	Lys540Glu	Non-synonymous
Pf3D7_05_v3:1119264	A	G	0.82	0.08	0.70	PF3D7_0526700		Tyr130His	Non-synonymous
Pf3D7_14_v3:2183418	A	T	0.05	0.79	0.72	PF3D7_1453200		Asn756Tyr	Non-synonymous
Pf3D7_05_v3:1114069	C	T, G	0.07	0.79	0.69	PF3D7_0526600		Ile4289Met (> G), Ile4289Ile (> T)	Non-synonymous (> G), Synonymous (> T)
Pf3D7_14_v3:2183653	C	A	0.01	0.73	0.70	PF3D7_1453200		Ser834Tyr	Non-synonymous
Pf3D7_14_v3:2183719	G	A	0.05	0.77	0.70	PF3D7_1453200		Arg856Gln	Non-synonymous
Pf3D7_06_v3:1206498	G	A	0.71	0.00	0.69	PF3D7_0629300	PL	Glu437Lys	Non-synonymous
Pf3D7_06_v3:1201098	T	C	0.69	0.00	0.69	PF3D7_0629200	DnaJ		5’ UTR variant

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Table 1 The 20 most differentiated single nucleotide polymorphisms between AF-E (n = 1,515) and Madagascar (n = 24), based on alternate allele frequency. REF = 3D7 reference strain nucleotide, ALT = alternate nucleotide.

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