Table 4.

Table showing the number of NGS reads, per 5 mill reads, mapped to control cellular mRNA amplicons and the highest and average number of reads for SARS-CoV-2 amplicons included in the Ampliseq panel.

Sample	Sample collection date	SARS-CoV-2 PCR (Ct)	TBP	LRP1	HMBS	MYC	ITGB7	Total	Mill reads	Total per 5 M reads	Virus amplicon coverage per 5 mill reads
											Highest in first 21,500 nt	Highest in full virus genome	Average of 168 amplicons in first 21,500 nt
GC-28/67	28/1/20	Not detected	157,551	2944	70,221	22,633	16	253,365	1.8	703,792	0	0	0
GC-26/66	7/3/20	Detected (21)	1486	193	476	338	732	3225	14.3	1128	99,927	116,186	48,581
GC13/35	23/3/20	Detected (29)	54	2	22	12	120	210	1.6	656	3022	26,200	185
GC-11/34	24/3/20	Detected (19)	0	0	0	1	1	2	1.2	8	12,617	3,776,575	726
GC-11/38	24/3/20	Detected (19)	0	9	0	0	2	11	3.3	17	55,377	373,552	15,201
GC-20/63	2/4/20	Detected (31)	259,450	11,510	35,621	43,798	284,859	635,238	1.3	2,443,223	28,396	1,337,769	72
GC-24/61	7/4/20	Detected (31)	222,864	82,467	66,551	138,145	220,593	730,620	2.3	1,588,304	181,672	469,278	9510
GC-12/36	24/3/20	Detected (31)	421	66	28	626	1725	2866	1.3	11,023	81	900	4
GC-14/33	28/3/20	Detected (18)	0	1	0	0	1	2	6	2	693	1880	172
GC-14/37	28/3/20	Detected (18)	1	18	1	2	3	25	5.3	24	79,092	91,491	15,358
GC-23/60	8/4/20	Detected (31)	214,567	81,749	91,585	163,657	214,265	765,823	2.6	1,472,737	408,398	661,887	21,965
GC-51/62	14/4/20	Detected (31)	483,313	260.623	210,787	159,479	242,317	1,356,519	2.6	2,608,690	32,142	269,108	222
GC-21/64	3/4/20	Detected (31)	575,261	167,868	230,305	96,124	580,411	1,649,969	3	2,749,948	125,907	704,475	827
GC-25/65	10/4/20	Detected (19)	5	7	85	186	1055	1338	5.1	1312	351,893	1,129,815	3614
GC-55/68	24/4/20	Detected (16)	2	0	0	0	0	2	3.9	3	417,778	946,012	3922