National Institute Of Genetic Engineering and Biotechnology

P.I:Mohammad-Ali Malboobi
Here we provide last mutation observed in Nucleocapsid gene of COVID-19 prevalent in Iran.
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Amino acid changes

How to read this table:
- Rows are reference amino acids and columns are changed amino acids. E.g. Row 'A' column 'E' indicates how many 'A' amino acids have been replaced by 'E' amino acids.
- Red background colors indicate that more changes happened (heat-map).
- Diagonals are indicated using grey background color
- WARNING: This table may include different translation codon tables (e.g. mamalian DNA and mitochondrial DNA).

  * - ? A C D F G H I K L M N P Q R S T V Y
*     2                                    
-     112                                    
?                                          
A     6 3                           2   2  
C     3   1                                
D     2     1   1 1         1             1
F     12       2         4           2     1
G     3     1   1                          
H                                          
I     9             1   4 3           3 2  
K                                          
L     11       3     1   4 1   2         1  
M     6             4 1               1    
N     16     4       1 1     5       1 1   2
P     2 1               1     2 1   1 1    
Q 1   3                         1          
R 1   5   1     1 1 1   1     1   2        
S     6 1     1 1   1         1     1      
T     6 1           1     1       1   3    
V     11 2     2     2   3               5  
Y     9   2       2                       2

Nucleotide and amino acid mutations

Here we provide list of mutation observed in Nucleocapsid at gene and protein of COVID-19.
-The position column is nucleotide position in reference genome as NC_045512.2
-The Reference column indicate reference nucleotide in NC_045512.2
-The NS column indicate number of samples that this position have been observed
-The NSR column indicate number of samples with reference nucleotide. Therefore diffrenciate related to Ns indicate number of sample with mutated nucleotide
Contoury Position Reference Alt. NSR NS AAchange
0 England 29558 A 189409 189409
1 England 29559 T 189416 189415
2 England 29560 G T,A 189421 189409 Met1?-p.Met1?
3 England 29561 G 189421 189420
4 England 29562 G A 189421 189419 Gly2Asp
5 England 29563 C T 189424 189419 Gly2Gly
6 England 29564 T 189424 189421
7 England 29565 A G 189429 189423 Tyr3Cys
8 England 29566 T 189429 189428
9 England 29567 A G,C 189430 189398 Ile4Val-p.Ile4Leu
10 England 29568 T C 189430 189412 Ile4Thr
11 England 29569 A G 189430 189424 Ile4Met
12 England 29570 A T,G 189431 189427 Asn5Tyr-p.Asn5Asp
13 England 29571 A T 189432 189430 Asn5Ile
14 England 29572 C T,A 189432 189423 Asn5Lys-p.Asn5Asn
15 England 29573 G T,A 189433 189413 Val6Phe-p.Val6Ile
16 England 29574 T 189433 189427
17 England 29575 T C,A,G 189433 189391 Val6Val-p.Val6Val
18 England 29576 T 189434 189427
19 England 29577 T 189437 189432
20 England 29578 C T,A 189438 189427 Phe7Leu-p.Phe7Phe
21 England 29579 G T 189438 189421 Ala8Ser
22 England 29580 C T 189438 189344 Ala8Val
23 England 29581 T C 189439 189427 Ala8Ala
24 England 29582 T C 189440 189430 Phe9Leu
25 England 29583 T 189441 189436
26 England 29584 T 189442 189433
27 England 29585 C T,G,A 189442 189038 Pro10Ala-p.Pro10Thr
28 England 29586 C T,A 189443 189398 Pro10Leu-p.Pro10Gln
29 England 29587 G A,T 189444 189424 Pro10Pro-p.Pro10Pro
30 England 29588 T C 189444 189415 Phe11Leu
31 England 29589 T C 189444 189414 Phe11Ser
32 England 29590 T C 189443 189440 Phe11Phe
33 England 29591 A 189445 189445
34 England 29592 C T 189445 189257 Thr12Met
35 England 29593 G A,T 189446 189418 Thr12Thr-p.Thr12Thr
36 England 29594 A C,T 189448 189444 Ile13Leu-p.Ile13Leu
37 England 29595 T C 189441 189439 Ile13Thr
38 England 29596 A G 189443 189423 Ile13Met
39 England 29597 T C 189443 189438 Tyr14His
40 England 29598 A 189444 189440
41 England 29599 T C 189444 189440 Tyr14Tyr
42 England 29600 A G 189443 189439 Ser15Gly
43 England 29601 G T 189445 189444 Ser15Ile
44 England 29602 T C 189444 189442 Ser15Ser
45 England 29603 C T 189445 189443 Leu16Leu
46 England 29604 T C 189444 189430 Leu16Pro
47 England 29605 A 189442 189441
48 England 29606 C T 189442 189433 Leu17Phe
49 England 29607 T C 189441 189209 Leu17Pro
50 England 29608 C T 189440 189437 Leu17Leu
51 England 29609 T C,A 189440 189438 Leu18Met-p.Leu18Leu
52 England 29610 T 189436 189435
53 England 29611 G T 189436 189433 Leu18Phe
54 England 29612 T 189435 189432
55 England 29613 G 189435 189434
56 England 29614 C T 189435 188860 Cys19Cys
57 England 29615 A T 189433 189430 Arg20*
58 England 29616 G T 189433 189417 Arg20Ile
59 England 29617 A G 189435 189052 Arg20Arg
60 England 29618 A 189460 189458
61 England 29619 T C,A 189460 189452 Met21Thr-p.Met21Lys
62 England 29620 G T,C 189459 189439 Met21Ile-p.Met21Ile
63 England 29621 A G 189459 189455 Asn22Asp
64 England 29622 A G,C 189459 189452 Asn22Ser-p.Asn22Thr
65 England 29623 T C 189459 189454 Asn22Asn
66 England 29624 T G,C 189458 189449 Ser23Ala-p.Ser23Pro
67 England 29625 C T 189455 189284 Ser23Phe
68 England 29626 T 189455 189455
69 England 29627 C T,G 189456 189339 Arg24Cys-p.Arg24Gly
70 England 29628 G T,C,A 189455 189400 Arg24Pro-p.Arg24His
71 England 29629 T C 189454 189451 Arg24Arg
72 England 29630 A G 189454 189453 Asn25Asp
73 England 29631 A 189454 189454
74 England 29632 C T 189454 189435 Asn25Asn
75 England 29633 T C 189454 189445 Tyr26His
76 England 29634 A G 189455 189454 Tyr26Cys
77 England 29635 C T 189454 189397 Tyr26Tyr
78 England 29636 A T,G 189451 189445 Ile27Leu-p.Ile27Val
79 England 29637 T C 189450 189448 Ile27Thr
80 England 29638 A T,G 189449 189435 Ile27Met-p.Ile27Ile
81 England 29639 G T 189446 189434 Ala28Ser
82 England 29640 C T 189445 189331 Ala28Val
83 England 29641 A T,C 189442 189434 Ala28Ala-p.Ala28Ala
84 England 29642 C T 189437 189294 Gln29*
85 England 29643 A 189429 189426
86 England 29644 A G 189427 189423 Gln29Gln
87 England 29645 G T,C 189425 118618 Val30Leu-p.Val30Leu
88 England 29646 T C 189424 189417 Val30Ala
89 England 29647 A T 189424 189420 Val30Val
90 England 29648 G T,C,A 189418 189362 Asp31His-p.Asp31Asn
91 England 29649 A G 189416 189413 Asp31Gly
92 England 29650 T C 189415 189405 Asp31Asp
93 England 29651 G T 189410 189388 Val32Leu
94 England 29652 T 189408 189408
95 England 29653 A G 189397 189395 Val32Val
96 England 29654 G T,A 189396 189380 Val33Phe-p.Val33Ile
97 England 29655 T C 189392 189385 Val33Ala
98 England 29656 T 189391 189389
99 England 29657 A T,G 189390 189384 Asn34Tyr-p.Asn34Asp
100 England 29658 A 189390 189388
101 England 29659 C T 189388 189311 Asn34Asn
102 England 29660 T C 189386 189381 Phe35Leu
103 England 29661 T C,A 189386 189376 Phe35Ser-p.Phe35Tyr
104 England 29662 T 189381 189372
105 England 29663 A 189381 189372
106 England 29664 A 189381 189373
107 England 29665 T C 189380 189370 Asn36Asn
108 England 29666 C T,A,G 187879 187266 Leu37Ile-p.Leu37Val
109 England 29667 T 187871 187330
110 England 29668 C T 187863 187827 Leu37Leu
111 England 29669 A G 187860 187851 Thr38Ala
112 England 29670 C T,G 187855 187830 Thr38Ile-p.Thr38Arg
113 England 29671 A T 187853 187849 Thr38Thr
114 England 29672 T 187851 187849
115 England 29673 A 187847 187847
116 England 29674 G 187835 187835