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 E.g. Row 'A' column 'E' indicates how many 'A' amino acids have been replaced by 'E' amino acids.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 E F G H I K L M N P Q R S T V Y
*     2                                      
-     217                                      
?                                            
A     12 5                             1 1 3  
C     9   2     1 1                 1 1     1
D     3     1     1           1             1
E 1   4     3 2   2     2         1          
F     15         4         5           1      
G     3   1                               1  
H                                            
I     9                   1             1    
K     6                 1     2   1          
L     40         8     3   17 2   4   2     3  
M     3                                      
N     15     1       1   1     4       1 2   1
P     6 1           2     1           1      
Q                                            
R     9   1       1 1 1 1 1         4        
S     21 2       3 1   2   2   1 5   1 13 1   2
T     12 2             2 1               4    
V     36 1       6 1   4   7 2             16  
Y 1   12             1                       3

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 USA 26245 A 87701 87701
1 USA 26246 T 87702 87702
2 USA 26247 G 87704 87704
3 USA 26248 T C 87704 87703 Tyr2His
4 USA 26249 A 87704 87704
5 USA 26250 C 87704 87704
6 USA 26251 T 87704 87703
7 USA 26252 C T 87706 87695 Ser3Leu
8 USA 26253 A 87707 87706
9 USA 26254 T 87707 87704
10 USA 26255 T 87707 87706
11 USA 26256 C T,A 87707 87303 Phe4Leu-p.Phe4Phe
12 USA 26257 G A,T,C 87707 87694 Val5Phe-p.Val5Leu
13 USA 26258 T 87707 87707
14 USA 26259 T A 87707 87703 Val5Val
15 USA 26260 T C 87707 87700 Ser6Pro
16 USA 26261 C T 87708 87703 Ser6Leu
17 USA 26262 G T,A,C 87708 87637 Ser6Ser-p.Ser6Ser
18 USA 26263 G A,T,C 87709 87700 Glu7Lys-p.Glu7Gln
19 USA 26264 A G 87710 87706 Glu7Gly
20 USA 26265 A G,C 87710 87700 Glu7Asp-p.Glu7Glu
21 USA 26266 G A 87711 87707 Glu8Lys
22 USA 26267 A G 87711 87707 Glu8Gly
23 USA 26268 G T,A,C 87712 87691 Glu8Asp-p.Glu8Glu
24 USA 26269 A 87712 87710
25 USA 26270 C T,A 87712 87654 Thr9Ile-p.Thr9Lys
26 USA 26271 A T,G 87712 87706 Thr9Thr-p.Thr9Thr
27 USA 26272 G T 87712 87702 Gly10Cys
28 USA 26273 G T 87712 87705 Gly10Val
29 USA 26274 T 87712 87709
30 USA 26275 A G 87712 87708 Thr11Ala
31 USA 26276 C 87712 87708
32 USA 26277 G 87713 87711
33 USA 26278 T 87715 87711
34 USA 26279 T 87716 87713
35 USA 26280 A G,T 87716 87703 Leu12Phe-p.Leu12Leu
36 USA 26281 A T 87715 87710 Ile13Leu
37 USA 26282 T 87716 87713
38 USA 26283 A 87715 87712
39 USA 26284 G 87715 87710
40 USA 26285 T 87712 87704
41 USA 26286 T C 87712 87701 Val14Val
42 USA 26287 A 87712 87703
43 USA 26288 A 87712 87705
44 USA 26289 T 87712 87708
45 USA 26290 A 87710 87704
46 USA 26291 G A,T 87650 87636 Ser16Asn-p.Ser16Ile
47 USA 26292 C A 87641 87634 Ser16Arg
48 USA 26293 G 87641 87631
49 USA 26294 T 87641 87636
50 USA 26295 A 87641 87634
51 USA 26296 C T 87640 87631 Leu18Phe
52 USA 26297 T 87639 87631
53 USA 26298 T C 87639 87627 Leu18Leu
54 USA 26299 C T 87637 87624 Leu19Phe
55 USA 26300 T 87631 87617
56 USA 26301 T C 87631 87620 Leu19Leu
57 USA 26302 T C 87629 87616 Phe20Leu
58 USA 26303 T C 87630 87618 Phe20Ser
59 USA 26304 T C 87630 87611 Phe20Phe
60 USA 26305 C G,T 87616 87436 Leu21Val-p.Leu21Phe
61 USA 26306 T 87604 87594
62 USA 26307 T G,C,A 87600 87559 Leu21Leu-p.Leu21Leu
63 USA 26308 G 87599 87585
64 USA 26309 C T 87589 87565 Ala22Val
65 USA 26310 T C 87587 87567 Ala22Ala
66 USA 26311 T 87579 87559
67 USA 26312 T 87578 87562
68 USA 26313 C T 87579 87529 Phe23Phe
69 USA 26314 G A 87579 87525 Val24Met
70 USA 26315 T 87579 87566
71 USA 26316 G T 87578 87553 Val24Val
72 USA 26317 G 87578 87561
73 USA 26318 T 87578 87561
74 USA 26319 A G,T 87578 87543 Val25Val-p.Val25Val
75 USA 26320 T C 87578 87526 Phe26Leu
76 USA 26321 T 87576 87559
77 USA 26322 C T,A 87575 87547 Phe26Leu-p.Phe26Phe
78 USA 26323 T 87575 87559
79 USA 26324 T 87575 87558
80 USA 26325 G A 87575 87226 Leu27Leu
81 USA 26326 C T 87575 87550 Leu28Leu
82 USA 26327 T 87574 87559
83 USA 26328 A 87574 87556
84 USA 26329 G 87575 87560
85 USA 26330 T 87575 87560
86 USA 26331 T C 87575 87552 Val29Val
87 USA 26332 A G 87574 87520 Thr30Ala
88 USA 26333 C T 87574 87524 Thr30Ile
89 USA 26334 A G,C 87574 87552 Thr30Thr-p.Thr30Thr
90 USA 26335 C T 87574 87545 Leu31Leu
91 USA 26336 T C 87574 87559 Leu31Pro
92 USA 26337 A 87573 87558
93 USA 26338 G 87574 87555
94 USA 26339 C 87574 87557
95 USA 26340 C T 87577 87536 Ala32Ala
96 USA 26341 A 87577 87564
97 USA 26342 T C 87577 87565 Ile33Thr
98 USA 26343 C 87572 87558
99 USA 26344 C T 87571 87557 Leu34Phe
100 USA 26345 T 87570 87557
101 USA 26346 T 87567 87553
102 USA 26347 A 87567 87552
103 USA 26348 C 87567 87539
104 USA 26349 T 87565 87536
105 USA 26350 G A 87564 87529 Ala36Thr
106 USA 26351 C T 87559 87527 Ala36Val
107 USA 26352 G T 87559 87528 Ala36Ala
108 USA 26353 C T,A 87559 87523 Leu37Phe-p.Leu37Ile
109 USA 26354 T G 87558 87528 Leu37Arg
110 USA 26355 T 87558 87533
111 USA 26356 C 87558 87531
112 USA 26357 G 87558 87532
113 USA 26358 A G 87557 87527 Arg38Arg
114 USA 26359 T C 87555 87527 Leu39Leu
115 USA 26360 T 87553 87534
116 USA 26361 G 87553 87532
117 USA 26362 T G 87553 87528 Cys40Gly
118 USA 26363 G 87553 87529
119 USA 26364 T 87555 87521
120 USA 26365 G T 87554 87517 Ala41Ser
121 USA 26366 C T 87554 87509 Ala41Val
122 USA 26367 G T,C 87553 87491 Ala41Ala-p.Ala41Ala
123 USA 26368 T 87552 87516
124 USA 26369 A 87550 87521
125 USA 26370 C T 87550 87518 Tyr42Tyr
126 USA 26371 T C 87550 87518 Cys43Arg
127 USA 26372 G T 87549 87511 Cys43Phe
128 USA 26373 C T 87548 87516 Cys43Cys
129 USA 26374 T A 87547 87517 Cys44Ser
130 USA 26375 G A 87547 87516 Cys44Tyr
131 USA 26376 C T 87546 87514 Cys44Cys
132 USA 26377 A 87545 87518
133 USA 26378 A 87545 87522
134 USA 26379 T C 87543 87521 Asn45Asn
135 USA 26380 A 87544 87522
136 USA 26381 T 87543 87522
137 USA 26382 T 87542 87514
138 USA 26383 G T 87542 87511 Val47Phe
139 USA 26384 T 87536 87514
140 USA 26385 T C 87536 87510 Val47Val
141 USA 26386 A G 87535 87513 Asn48Asp
142 USA 26387 A 87535 87511
143 USA 26388 C T 87535 87512 Asn48Asn
144 USA 26389 G T,A 87532 87395 Val49Leu-p.Val49Met
145 USA 26390 T 87530 87511
146 USA 26391 G T,A 87529 87502 Val49Val-p.Val49Val
147 USA 26392 A G 87525 87499 Ser50Gly
148 USA 26393 G T 87522 87496 Ser50Ile
149 USA 26394 T C 87519 87493 Ser50Ser
150 USA 26395 C T,A 87519 87474 Leu51Phe-p.Leu51Ile
151 USA 26396 T 87515 87496
152 USA 26397 T 87515 87494
153 USA 26398 G A,T 87515 87487 Val52Ile-p.Val52Leu
154 USA 26399 T 87515 87488
155 USA 26400 A G,T 87514 87482 Val52Val-p.Val52Val
156 USA 26401 A C 87514 87489 Lys53Gln
157 USA 26402 A 87514 87486
158 USA 26403 A C 87512 87485 Lys53Asn
159 USA 26404 C G 87510 87483 Pro54Ala
160 USA 26405 C A 87509 87480 Pro54His
161 USA 26406 T 87509 87483
162 USA 26407 T C 87509 87480 Ser55Pro
163 USA 26408 C T 87509 87328 Ser55Phe
164 USA 26409 T C 87508 87465 Ser55Ser
165 USA 26410 T C 87509 87483 Phe56Leu
166 USA 26411 T 87508 87486
167 USA 26412 T 87506 87482
168 USA 26413 T 87505 87480
169 USA 26414 A 87504 87482
170 USA 26415 C T,A 87504 87483 Tyr57*-p.Tyr57Tyr
171 USA 26416 G A,T,C 87503 87441 Val58Phe-p.Val58Leu
172 USA 26417 T 87501 87479
173 USA 26418 T C 87501 87485 Val58Val
174 USA 26419 T 87501 87482
175 USA 26420 A 87501 87480
176 USA 26421 C T 87501 87479 Tyr59Tyr
177 USA 26422 T C,A 87500 87476 Ser60Pro-p.Ser60Thr
178 USA 26423 C A 87498 87476 Ser60Tyr
179 USA 26424 T C,A,G 87495 87461 Ser60Ser-p.Ser60Ser
180 USA 26425 C T 87494 87462 Arg61Cys
181 USA 26426 G T,A 87494 87459 Arg61Leu-p.Arg61His
182 USA 26427 T G,C 87493 87458 Arg61Arg-p.Arg61Arg
183 USA 26428 G T,C,A 87493 87394 Val62Leu-p.Val62Ile
184 USA 26429 T 87491 87468
185 USA 26430 T C 87487 87464 Val62Val
186 USA 26431 A 87486 87463
187 USA 26432 A 87484 87465
188 USA 26433 A G,C 87480 87372 Lys63Asn-p.Lys63Lys
189 USA 26434 A C 87475 87453 Asn64His
190 USA 26435 A G,C 87475 87456 Asn64Ser-p.Asn64Thr
191 USA 26436 T C,G 87476 87454 Asn64Lys-p.Asn64Asn
192 USA 26437 C T,G,A 87475 87440 Leu65Met-p.Leu65Leu
193 USA 26438 T C 87471 87453 Leu65Pro
194 USA 26439 G T,A 87471 87435 Leu65Leu-p.Leu65Leu
195 USA 26440 A T 87468 87444 Asn66Tyr
196 USA 26441 A C 87466 87440 Asn66Thr
197 USA 26442 T C 87465 87438 Asn66Asn
198 USA 26443 T G,C 87462 87448 Ser67Ala-p.Ser67Pro
199 USA 26444 C T 87460 87435 Ser67Phe
200 USA 26445 T G,C 87444 87427 Ser67Ser-p.Ser67Ser
201 USA 26446 T G,C 87442 87425 Ser68Ala-p.Ser68Pro
202 USA 26447 C T,A 87442 87301 Ser68Phe-p.Ser68Tyr
203 USA 26448 T G,C,A 87440 87427 Ser68Ser-p.Ser68Ser
204 USA 26449 A G 87430 87420 Arg69Gly
205 USA 26450 G T,A 87430 87370 Arg69Ile-p.Arg69Lys
206 USA 26451 A G 87421 87408 Arg69Arg
207 USA 26452 G T,C 87420 87395 Val70Phe-p.Val70Leu
208 USA 26453 T G 87411 87395 Val70Gly
209 USA 26454 T C 87409 87391 Val70Val
210 USA 26455 C T 87406 86909 Pro71Ser
211 USA 26456 C T,A 87405 87310 Pro71Leu-p.Pro71His
212 USA 26457 T 87402 87393
213 USA 26458 G T,A 87402 87321 Asp72Tyr-p.Asp72Asn
214 USA 26459 A G 87398 87271 Asp72Gly
215 USA 26460 T C 87397 87364 Asp72Asp
216 USA 26461 C T,G,A 87391 87226 Leu73Val-p.Leu73Ile
217 USA 26462 T G,C 87388 87381 Leu73Arg-p.Leu73Pro
218 USA 26463 T C 87386 87380 Leu73Leu
219 USA 26464 C T,A 87383 87255 Leu74Met-p.Leu74Leu
220 USA 26465 T C 87378 87374 Leu74Pro
221 USA 26466 G T,A 87368 87330 Leu74Leu-p.Leu74Leu
222 USA 26467 G T,C 87366 87358 Val75Phe-p.Val75Leu
223 USA 26468 T C 87363 87359 Val75Ala
224 USA 26469 C G,T 87354 87260 Val75Val-p.Val75Val
225 USA 26470 T 87342 87338
226 USA 26471 A 87334 87334
227 USA 26472 A 87331 87331