Table 2.

Table showing the details of the sample number, average read length, number of reads and number of reads mapped to each subgenomic SARS-CoV-2 RNA.

Sample	Average read length	Number of reads in millions	S Orf2	Orf3a	E Orf4	M Orf5	Orf6	Orf7a	Orf7b	Orf8	N Orf9	Orf10
GC-28/67	76	1.8	0	0	0	0	0	0	0	0	0	0
GC-26/66	207	14.3	1611	17,702	18,165	5793	7066	19,443	0	807	20,156	0
GC-13/35	149	1.6	1	17	17	9	14	72	0	17	81	0
GC-11/34	73	1.2	8	29	98	63	58	592	0	250	35	0
GC-11/38	184	3.3	179	2464	1715	1702	1587	4107	0	406	5071	0
GC-20/63	83	1.3	0	0	133	1	972	0	0	0	0	0
GC-24/61	115	2.3	0	0	16,067	283	0	5132	0	0	14,442	0
GC-12/36	163	1.3	0	4	0	0	1	1	0	1	1	0
GC-14/33	153	6	15	57	77	99	60	261	0	42	174	0
GC-14/37	185	5.2	243	6798	5691	5548	6551	12,898	0	1539	33,261	0
GC-23/60	150	5.2	204	74	11,117	304	12,972	6902	0	1463	51,614	0
GC-51/62	100	2.6	0	0	0	89	0	19,847	0	0	15,130	0
GC-21/64	92	3	0	0	0	88	0	9408	0	1052	3966	0
GC-25/65	84	5.1	2	10	16,581	1249	16,655	158,755	0	11,990	1841	0
GC-55/68	84	3.9	13	21	35,701	4453	4265	166,578	5	3328	942	0