Table 1 Distribution of SNPs relative to R1, in seven B. microti isolates and in the re-sequenced R1 isolate.

Isolate	Total count^a	Non coding region			Coding region			Unique SNPs		Ambiguous
Isolate	Total count^a	Inter-genic	Intronic	5′ UTR 3′ UTR	Syn.	Non-syn.	RTH NON	Unique ALT	Unique REF	QUAL	UNC
R1^b	1	1	0	0	0	0	0	0	515	0	0
ATCC_30222	523	106	49	33	163	170	2	25	0	22	0
ATCC_PRA-99	507	102	53	32	154	164	2	6	0	31	0
GI	528	106	53	33	163	171	2	6	0	7	0
Greenwich_Lab_Strain_1	456	85	44	30	146	149	2	3	0	79	1
Nan_Hs_2011_N11–50	524	104	54	33	164	167	2	5	0	12	0
Naushon	523	107	53	33	162	166	2	3	0	11	0
Bm1438	508	106	48	34	160	158	2	6	0	26	2
Total number of variable genomic positions	588	121	63	38	171	193	2	54	515	98	2

^aDifferences were identified against the R1 reference genome²⁵.
^bR1 reference isolate was re-sequenced, using Illumina HiSeq technology, to identify potential errors in the original assembly. The sequence variants identified are based on these Illumina data mapped against the reference genome assembly.

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