. 2020 May 12;10:7885. doi: 10.1038/s41598-020-64664-3

Table 4.

Lists of variants discovered in SAS, SAS tumour spheres, and H103.

Mitochondrial region	Base position	Reference base	Base alteration	Variant allele fraction
Mitochondrial region	Base position	Reference base	Base alteration	SAS	SAS tumour spheres	H103
D-loop	73	A	G	0.22	0.31	0.55^a,c
D-loop	150	C	T			0.52
D-loop	260	G	A	0.30^a	0.24
D-loop	263	A	G	0.58	0.51^a	0.57^a
D-loop	282	T	C			0.45
D-loop	309	C	CCC	0.10^a	0.12^a
D-loop	315	C	CC			0.40^a
D-loop	489	T	C	0.41	0.36
MT-RNR1	709	G	A	0.75	0.56^b
MT-RNR1	750	A	G	0.64	0.52	0.79^a
MT-RNR1	1438	A	G	0.51	0.39	0.53^a
MT-RNR2	1811	A	G			0.44^a
MT-RNR2	2706	A	G	0.64	0.51	0.73^a
MT-ND1	3738	C	T			0.91^a
MT-ND1	4107	C	T	0.23^a	0.16^a
MT-ND2	4505	C	T	0.67	0.54
MT-ND2	4769	A	G	0.37	0.38	0.50^a
MT-ND2	4833	A	G	0.42	0.35
MT-ND2	5108	T	C	0.59	0.31^b
MT-ND2	5240	A	G			0.54^a
MT-TA	5601	C	T	0.34	0.39
MT-CO1	6392	T	C			0.17^a
MT-CO1	6455	C	T			0.55^a
MT-CO1	6737	A	G	0.62	0.54
MT-CO1	7028	C	T	0.68	0.51	0.46^a
MT-CO1	7055	A	G			0.46^a
MT-CO2	7600	G	A	0.63	0.25^b
MT-ATP6	8701	A	G	0.63	0.57
MT-ATP6	8860	A	G	0.58	0.48	0.68^a
MT-ATP6	9165	T	C	0.75	0.71
MT-CO3	9365	C	T			0.33^a
MT-CO3	9377	A	G	0.58	0.63
MT-CO3	9540	T	C	0.69	0.48^b
MT-CO3	9575	G	A	0.62	0.56
MT-CO3	9698	T	C			0.67^a
MT-ND3	10398	A	G	0.58	0.53
MT-ND3	10400	C	T	0.63	0.62
MT-ND4L	10733	C	T			0.60^a
MT-ND4	10873	T	C	0.26^a	0.09^a
MT-ND4	11465	T	C			0.55^a
MT-ND4	11467	A	G			0.64^a
MT-ND4	11719	G	A	0.73	0.72	0.67^a
MT-ND4	11809	T	C	0.65	0.50
MT-TL2	12308	A	G			0.50^a
MT-TL2	12311	T	C	0.58	0.42
MT-ND5	12372	G	A			0.30^a
MT-ND5	12705	C	T	0.70	0.47^b
MT-ND5	13145	G	A			0.38^a
MT-ND5	13247	T	C			0.31^a
MT-ND5	13563	A	G	0.64	0.47
MT-ND5	13677	C	T	0.36	0.39
MT-ND6	14200	T	C	0.54	0.56
MT-ND6	14281	C	T	0.31	0.54^a,b
MT-ND6	14569	G	A	0.59	0.59
MT-CYB	14766	C	T	0.69	0.53	0.64^a
MT-CYB	14783	T	C	0.59	0.42^b
MT-CYB	14798	T	C	0.51	0.31^b
MT-CYB	15043	G	A	0.67	0.57
MT-CYB	15301	G	A	0.42	0.32
MT-CYB	15326	A	G	0.76	0.57^b	0.70
MT-TT	15924	A	G	0.60	0.37^b
D-loop	16146	A	G			0.27^a
D-loop	16184	C	A	0.21^a	0.26a
D-loop	16186	C	T	0.13^a	0.26^a,b
D-loop	16189	T	C	0.15^a	0.14^a
D-loop	16223	C	T	0.67	0.60
D-loop	16260	C	T			0.29^a
D-loop	16269	A	G	0.64	0.37^b
D-loop	16278	C	T	0.74	0.65
D-loop	16342	T	C			0.37
D-loop	16362	T	C	0.44	0.33

The variant allele fraction was computed based on the fraction of the base-called reads that supported the variant, generated by Nanopolish, and the base statistics from Integrative Genomics Viewer version 2.3.97.

^aVariant allele fraction was calculated from the base statistics from Integrative Genomics Viewer version 2.3.97, where the minimum allele coverage was set to nine and the minimum number of variant reads was set to three.

^bFisher’s exact test for the differences in the variant allele fractions between SAS and SAS tumour spheres. P < 0.05.

^cFisher’s exact test for the differences in the variant allele fractions between H103 and SAS. P < 0.05.