Table 2.

Distribution of parsimony informative sites across the genome of nCOV-2019.

S No	Genome region	Start position	End position	Size (bp)	No of parsimony sites	Strike-rate of parsimony sitesa	Position of parsimony informative sites including the gaps and ambiguous sequences
1	5′UTR	1	265	265	9	29.4	22, 55, 56, 94, 106, 218, 219, 222, 241
2	ORF1a	266	13,483	13,218	100	132.2	506, 635, 771, 875, 884, 1059, 1094, 1191, 1218, 1281, 1397, 1589, 1599, 1707, 1820, 1846, 2143, 2368, 2480, 2558, 2632, 2836, 3037, 3039, 3054, 3085, 3426, 3472, 3634, 3686, 3737, 3817, 4067, 4084, 4255, 4354, 4372, 4444, 4679, 4809, 4866, 4893, 4965, 5029, 5062, 5139, 5572, 5700, 5826, 6081, 6310, 6312, 6402, 6466, 6541, 6573, 6616, 6868, 6989, 7319, 7392, 7600, 7945, 8022, 8026, 8080, 8296, 8460, 8653, 8782, 8917, 8950, 9389, 9438, 9628, 9693, 10138, 10277, 10369, 10478, 10479, 10679, 10702, 10771, 10815, 11074, 11083, 11200, 11306, 11335, 11457, 11572, 11620, 12076, 12439, 12616, 12685, 12757, 13458
3	ORF1b	13,468	21,555	8,088	58	139.4	13585, 13617, 13730, 13859, 14130, 14181, 14274, 14408, 14425, 14673, 14805, 15324, 15435, 15451, 15708, 16017, 16078, 16355, 16393, 16626, 16738, 16852, 16887, 16993, 17135, 17440, 17722, 17747, 17858, 17959, 18052, 18129, 18380, 18395, 18457, 18486, 18511, 18877, 19086, 19185, 19344, 19417, 19524, 19679, 19684, 19816, 19872, 19983, 20006, 20063, 20087, 20151, 20355, 20773, 21004, 21137, 21550, 21551
4	S	21,563	25,384	3,822	33	115.8	21575, 21627, 21628, 21646, 21724, 21792, 21795, 21890, 22289, 22343, 22374, 22444, 22468, 22530, 22663, 23120, 23236, 23277, 23111, 23403, 23593, 23638, 23678, 23815, 23821, 23929, 24811, 24933, 25098, 25290, 25314, 25381
5	ORF3a	25,393	26,220	828	10	82.8	25445, 25461, 25513, 25528, 25563, 25596, 25613, 25855, 25904, 26144
6	Non-coding	26,221	26,244	24	1	24	26226
7	E	26,245	26,472	228	5	45.6	26330, 26338, 26375, 26376, 26467
8	M	26,523	27,191	669	6	111.5	26530, 26681, 26730, 26735, 27110, 27191
9	ORF6	27,202	27,387	186	5	37.2	27213, 27379, 27382, 27383, 27384
10	ORF7a	27,394	27,759	366	1	366	27613
11	ORF7b	27,756	27,887	132	1	132	27874
12	Non-coding	27,888	27,893	6	1	6	27889
13	ORF8	27,894	28,259	366	7	52.3	28001, 28077, 28083, 28114, 28221, 28253, 28254
14	N	28,274	29,533	1,260	20	63	28289, 28311, 28312, 28326, 28371, 28396, 28688, 28795, 28854, 28878, 28881, 28882, 28883, 28948, 29039, 29188, 29197, 29236, 29451, 29474
15	Non-coding	29,534	29,557	24	3	8	29543, 29555, 29557
16	ORF10	29,558	29,674	117	0
17	3′UTR	29,675	29,903	229	10	22.9	29722, 29734, 29742, 29743, 29774, 29827, 29829, 29830, 29870, 29874
	Total				270

^aCalculated by size/no. of parsimony sites in the region.