Table 2 Total records of Non-Spike mutations identified in a chronic SARS-CoV-2 alpha variant.

From: Wastewater sequencing from a rural community enables identification of widespread adaptive mutations in a SARS-CoV-2 alpha variant

MUTATION

SRA

GenBank

Unique Samples

NSP1:S17I

1

0

1

NSP2:G445 C (G265 C)a

6

20

21

NSP3:S944L (S126L)

60

148

111

NSP3:D1184E (D366E)

6

8

6

NSP3:A1306S (A488S)

0

0

0

NSP3:H1545Y (H727Y)

1

4

2

NSP3:K1795Q (K977Q)

2

11

8

NSP3:R2115I (R1297I)

13

1

13

NSP3:H2520 N (H1702 N)

0

0

0

NSP3:S2661 F (S1843 F)

19

23

25

NSP4:M2796I (M33I)

33

39

41

NSP4:V2943 F (V180 F)

1

2

1

NSP4:I2961 F (I198 F)

0

0

0

NSP4:D2980G (D217G)

11

10

11

3 CLpro: K3499R (K236R)

1

4

4

NSP6:L3606 F (L37 F)

714

984

977

NSP6:F3753 V (F187 V)

2

6

6

RdRp: S4621 N (S232 N)

13

29

18

RdRp: T5304 N (T915 N)

0

0

0

NSP15:E6712 K (E263 K)

2

2

2

NSP15:F6715L (F266L)

6

8

8

NSP16:R7014 N (R219 N)

0

0

0

ORF3a: I35 K

42

56

46

ORF3a: E102D

1

2

2

ORF3a: G172R

0

1

0

ORF3a: M260 K

11

17

15

M: D3 N

13

14

19

M: Q19H

0

0

0

ORF6:D61E

0

0

0

ORF7a: T120I

34

72

63

ORF7b: A43 V

43

68

65

N: N8D

2

3

2

N: S37P

28

48

48

  1. aORF1ab mutations outside of parentheses were determined from the first amino acid in nsp1. ORF1ab mutations inside of parentheses were determined from the first amino acid of each protein and were required for this analysis.
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