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.
We kindly wait your comment or coopration in tracking crona virus project.
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 E.g. Row 'A' column 'E' indicates how many 'A' amino acids have been replaced by 'E' amino acids.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 W Y
*     2                                        
-     177                                        
?                                              
A     3 2     1                         1 1    
C                                              
D     11     4     3 1         3           1   4
E 3   14 1   6 3   3               3       1    
F     9         3         3           3       1
G                                              
H     3     1       1     1       1 1         1
I     30         2     4 1 2 2 1       1 9 7    
K     12               1 4     3     2          
L     23         3     3   12     5     1        
M     8               6   2             1 2    
N     12     2         1 2     4         1      
P     3                   1     1     1        
Q 1   7             3     2     1 3 3          
R     3           1     1   1       2 1        
S     11 2 1     3               4     8       2
T     8 1             3       2 1       6      
V     9 1       3     2                   2    
W 1   3   1               1         1          
Y     6   1     1   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 27202 A 190289 190289
1 England 27203 T 190289 190289
2 England 27204 G T,C 190290 190268 Met1?-p.Met1?
3 England 27205 T C 190290 190285 Phe2Leu
4 England 27206 T C 190298 190283 Phe2Ser
5 England 27207 T C 190298 190283 Phe2Phe
6 England 27208 C T,G 190308 190236 His3Tyr-p.His3Asp
7 England 27209 A G,T 190308 190295 His3Arg-p.His3Leu
8 England 27210 T C,G 190308 190302 His3Gln-p.His3His
9 England 27211 C T,A 190309 190302 Leu4Phe-p.Leu4Ile
10 England 27212 T C 190309 190306 Leu4Pro
11 England 27213 C T,A,G 190309 190029 Leu4Leu-p.Leu4Leu
12 England 27214 G T,A 190309 190245 Val5Phe-p.Val5Ile
13 England 27215 T 190309 190309
14 England 27216 T A 190333 190328 Val5Val
15 England 27217 G A,T 190333 190250 Asp6Asn-p.Asp6Tyr
16 England 27218 A 190333 190332
17 England 27219 C T 190333 190315 Asp6Asp
18 England 27220 T C 190336 190276 Phe7Leu
19 England 27221 T A,C 190336 190317 Phe7Tyr-p.Phe7Ser
20 England 27222 T C 190341 190319 Phe7Phe
21 England 27223 C T 190342 190315 Gln8*
22 England 27224 A G 190342 190329 Gln8Arg
23 England 27225 G A,T,C 190342 190330 Gln8His-p.Gln8Gln
24 England 27226 G T 190342 190327 Val9Phe
25 England 27227 T 190343 190336
26 England 27228 T 190344 190334
27 England 27229 A 190345 190339
28 England 27230 C T,A 190348 190335 Thr10Ile-p.Thr10Asn
29 England 27231 T C 190348 190341 Thr10Thr
30 England 27232 A G 190347 190336 Ile11Val
31 England 27233 T C,A 190347 190333 Ile11Thr-p.Ile11Lys
32 England 27234 A T 190344 190336 Ile11Ile
33 England 27235 G A 190344 190331 Ala12Thr
34 England 27236 C T,A 190344 190336 Ala12Val-p.Ala12Glu
35 England 27237 A G,T 190344 190302 Ala12Ala-p.Ala12Ala
36 England 27238 G T 190345 190324 Glu13*
37 England 27239 A 190336 190331
38 England 27240 G T,A 190337 190316 Glu13Asp-p.Glu13Glu
39 England 27241 A G 190335 190310 Ile14Val
40 England 27242 T C 190333 190326 Ile14Thr
41 England 27243 A 190334 190330
42 England 27244 T C 190330 190320 Leu15Leu
43 England 27245 T C 190331 190325 Leu15Ser
44 England 27246 A 190333 190331
45 England 27247 C T 190329 190220 Leu16Leu
46 England 27248 T C 190328 190316 Leu16Pro
47 England 27249 A 190326 190315
48 England 27250 A G 190325 190318 Ile17Val
49 England 27251 T C 190325 190315 Ile17Thr
50 England 27252 T 190324 190315
51 England 27253 A T,G 190323 190312 Ile18Phe-p.Ile18Val
52 England 27254 T 190323 190314
53 England 27255 T 190323 190317
54 England 27256 A G 190323 190308 Met19Val
55 England 27257 T 190323 190317
56 England 27258 G T,A 190323 190311 Met19Ile-p.Met19Ile
57 England 27259 A G,C 190323 190310 Arg20Gly-p.Arg20Arg
58 England 27260 G A,T 190322 190300 Arg20Lys-p.Arg20Met
59 England 27261 G T,A 190322 190248 Arg20Ser-p.Arg20Arg
60 England 27262 A G 190238 190223 Thr21Ala
61 England 27263 C T,A 190237 190186 Thr21Ile-p.Thr21Asn
62 England 27264 T G,C 190237 190112 Thr21Thr-p.Thr21Thr
63 England 27265 T C 190237 190210 Phe22Leu
64 England 27266 T C 190237 190215 Phe22Ser
65 England 27267 T C 190235 190205 Phe22Phe
66 England 27268 A 190235 190206
67 England 27269 A G 190234 190212 Lys23Arg
68 England 27270 A G 190233 190212 Lys23Lys
69 England 27271 G T,A 190231 189951 Val24Phe-p.Val24Ile
70 England 27272 T C 190225 190179 Val24Ala
71 England 27273 T A 190225 190193 Val24Val
72 England 27274 T C 190225 190192 Ser25Pro
73 England 27275 C A,T 190225 190190 Ser25Tyr-p.Ser25Phe
74 England 27276 C A 190225 190190 Ser25Ser
75 England 27277 A G 190225 190189 Ile26Val
76 England 27278 T C,A 190225 190189 Ile26Thr-p.Ile26Asn
77 England 27279 T C,G 190225 190186 Ile26Met-p.Ile26Ile
78 England 27280 T C 190225 190187 Trp27Arg
79 England 27281 G T 190225 189820 Trp27Leu
80 England 27282 G T,A 190226 190181 Trp27*-p.Trp27Cys
81 England 27283 A G 190225 190191 Asn28Asp
82 England 27284 A 190225 190187
83 England 27285 T C 190223 190161 Asn28Asn
84 England 27286 C T,A 190223 190181 Leu29Phe-p.Leu29Ile
85 England 27287 T C 190222 190192 Leu29Pro
86 England 27288 T C 190224 190192 Leu29Leu
87 England 27289 G T,A 190223 190187 Asp30Tyr-p.Asp30Asn
88 England 27290 A G 190223 190195 Asp30Gly
89 England 27291 T C 190224 190203 Asp30Asp
90 England 27292 T C 190224 190197 Tyr31His
91 England 27293 A 190232 190209
92 England 27294 C T 190231 190064 Tyr31Tyr
93 England 27295 A T 190231 190210 Ile32Phe
94 England 27296 T C,G 190230 190190 Ile32Thr-p.Ile32Ser
95 England 27297 C T 190231 190042 Ile32Ile
96 England 27298 A T,G 190232 190201 Ile33Leu-p.Ile33Val
97 England 27299 T C 190233 190195 Ile33Thr
98 England 27300 A G 190230 190216 Ile33Met
99 England 27301 A G 190230 190208 Asn34Asp
100 England 27302 A 190228 190209
101 England 27303 C A,T 190227 190197 Asn34Lys-p.Asn34Asn
102 England 27304 C T 190227 190191 Leu35Phe
103 England 27305 T C 190222 190128 Leu35Pro
104 England 27306 C 190222 190187
105 England 27307 A T 190222 190182 Ile36Leu
106 England 27308 T C 190223 190183 Ile36Thr
107 England 27309 A 190223 190185
108 England 27310 A 190223 190193
109 England 27311 T C 190223 190183 Ile37Thr
110 England 27312 T C 190222 190173 Ile37Ile
111 England 27313 A 190225 190175
112 England 27314 A T 190225 190183 Lys38Ile
113 England 27315 A T,G 190225 190179 Lys38Asn-p.Lys38Lys
114 England 27316 A 190225 190193
115 England 27317 A T,C 190225 190189 Asn39Ile-p.Asn39Thr
116 England 27318 T G,C 190223 190187 Asn39Lys-p.Asn39Asn
117 England 27319 T C 190220 190104 Leu40Leu
118 England 27320 T 190220 190179
119 England 27321 A G 190220 190182 Leu40Leu
120 England 27322 T G,C 190310 190274 Ser41Ala-p.Ser41Pro
121 England 27323 C T,G 190308 190251 Ser41Phe-p.Ser41Cys
122 England 27324 T C,G,A 190308 190250 Ser41Ser-p.Ser41Ser
123 England 27325 A 190309 190280
124 England 27326 A G 190309 190264 Lys42Arg
125 England 27327 G T,A 190311 190261 Lys42Asn-p.Lys42Lys
126 England 27328 T C,G 190311 190274 Ser43Pro-p.Ser43Ala
127 England 27329 C 190312 190292
128 England 27330 A G,T 190312 190287 Ser43Ser-p.Ser43Ser
129 England 27331 C T,A 190312 190280 Leu44Ile-p.Leu44Leu
130 England 27332 T C 190313 190297 Leu44Pro
131 England 27333 A G 190315 190306 Leu44Leu
132 England 27334 A C 190315 190306 Thr45Pro
133 England 27335 C T 190316 190300 Thr45Ile
134 England 27336 T C,G,A 190316 190293 Thr45Thr-p.Thr45Thr
135 England 27337 G 190316 190305
136 England 27338 A G 190316 190302 Glu46Gly
137 England 27339 G 190317 190310
138 England 27340 A 190317 190311
139 England 27341 A 190315 190310
140 England 27342 T C 190315 190288 Asn47Asn
141 England 27343 A 190313 190308
142 England 27344 A 190313 190308
143 England 27345 A G,C 190313 190302 Lys48Asn-p.Lys48Lys
144 England 27346 T C 190313 190296 Tyr49His
145 England 27347 A G,T 190313 190295 Tyr49Cys-p.Tyr49Phe
146 England 27348 T C 190313 190205 Tyr49Tyr
147 England 27349 T C 190314 190303 Ser50Pro
148 England 27350 C A,T 190313 190296 Ser50Tyr-p.Ser50Phe
149 England 27351 T C,G 190313 190295 Ser50Ser-p.Ser50Ser
150 England 27352 C 190313 190307
151 England 27353 A C,T,G 190313 190284 Gln51Leu-p.Gln51Arg
152 England 27354 A C,G 190315 190298 Gln51His-p.Gln51Gln
153 England 27355 T C 190315 190308 Leu52Leu
154 England 27356 T 190315 190311
155 England 27357 A G 190315 190307 Leu52Leu
156 England 27358 G T 190315 190283 Asp53Tyr
157 England 27359 A G 190315 190311 Asp53Gly
158 England 27360 T C 190315 190307 Asp53Asp
159 England 27361 G C 190313 190309 Glu54Gln
160 England 27362 A G 190197 190186 Glu54Gly
161 England 27363 A C 190158 190154 Glu54Asp
162 England 27364 G T,C 190158 190089 Glu55*-p.Glu55Gln
163 England 27365 A T,C 190157 190140 Glu55Val-p.Glu55Ala
164 England 27366 G T,A,C 190157 190125 Glu55Asp-p.Glu55Glu
165 England 27367 C 190157 190154
166 England 27368 A T,G 190156 190150 Gln56Leu-p.Gln56Arg
167 England 27369 A G 190155 190134 Gln56Gln
168 England 27370 C T 190155 190148 Pro57Ser
169 England 27371 C T 190154 190092 Pro57Leu
170 England 27372 A T 190152 190144 Pro57Pro
171 England 27373 A G,T,C 190151 190144 Met58Leu-p.Met58Leu
172 England 27374 T C 190149 190144 Met58Thr
173 England 27375 G A,T 190148 190120 Met58Ile-p.Met58Ile
174 England 27376 G C,T 190138 190129 Glu59*-p.Glu59Gln
175 England 27377 A G 190130 190128 Glu59Gly
176 England 27378 G T,C,A 190130 190110 Glu59Asp-p.Glu59Glu
177 England 27379 A G 190128 190120 Ile60Val
178 England 27380 T C 190127 190121 Ile60Thr
179 England 27381 T 190119 190114
180 England 27382 G T,C,A 189663 189567 Asp61His-p.Asp61Asn
181 England 27383 A T,G 189657 189633 Asp61Val-p.Asp61Gly
182 England 27384 T C 189652 188808 Asp61Asp
183 England 27385 T 189649 189649
184 England 27386 A 189641 189641
185 England 27387 A 189636 189636