NC-1 - Complete Raw Mutation Data

Full TSV data with all sample columns and abundance information
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Complete Mutations Data

This table shows the complete data from the mutations.tsv file exactly as it appears in the source. Scroll horizontally to see all columns.

SRR27503885(213772) SRR27200410(352113) SRR27200420(453197) SRR27503894(328723) SRR27955196(453777) SRR27955180(756359) SRR27200395(572886) SRR27200400(528896) SRR27503884(304932) SRR27503893(350512) SRR27955193(653736) SRR27955195(667183) SRR27200403(612505) SRR27200413(384066) SRR27503891(328530) SRR27200424(841426) SRR27200407(468048) SRR27955182(574915) SRR27200404(830838) SRR27955189(758959) SRR27200417(376666) SRR27200392(792272) SRR27200415(693341)
('2023-11-27', '182501') ('2023-11-13', '182501') ('2023-11-06', '182501') ('2023-11-20', '182501') ('2023-12-04', '182501') ('2023-12-11', '182501') ('2023-10-30', '182501') ('2023-10-24', '182501') ('2023-11-28', '178000') ('2023-11-21', '178000') ('2023-12-12', '178000') ('2023-12-05', '178000') ('2023-11-14', '178000') ('2023-11-07', '178000') ('2023-11-28', '550000') ('2023-10-31', '178000') ('2023-11-14', '550000') ('2023-12-05', '550000') ('2023-10-24', '178000') ('2023-12-12', '550000') ('2023-11-07', '550000') ('2023-10-31', '550000') ('2023-10-24', '550000')
Sequences Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Count Abundance Total samples Positives Sum Negatives Sum Total Sum
91 RATG13 G91A 14 0.609 27 0.675 2 1.284 0 1.284
100 C100A 17 0.654 24 0.511 2 1.165 0 1.165
178 A178G 21 0.618 57 0.792 2 1.4100000000000001 0 1.4100000000000001
329 C329A|(ORF1ab_polyprotein:C64A(Q22K))|(ORF1a_polyprotein:C64A(Q22K)) 17 0.548 17 0.262 2 0.81 0 0.81
335 C335T|(ORF1ab_polyprotein:C70T(R24C))|(ORF1a_polyprotein:C70T(R24C)) 14 0.197 12 0.200 2 0.397 0 0.397
344 C344T|(ORF1ab_polyprotein:C79T(L27F))|(ORF1a_polyprotein:C79T(L27F)) 13 0.310 37 0.416 2 0.726 0 0.726
378 RATG13 T378C|(ORF1ab_polyprotein:T113C(V38A))|(ORF1a_polyprotein:T113C(V38A)) 9 0.148 8 0.090 6 0.050 2 0.006 4 0.288 0.006 0.294
693 T693C|(ORF1ab_polyprotein:T428C(F143S))|(ORF1a_polyprotein:T428C(F143S)) 61 0.295 2 0.017 2 0.312 0 0.312
linked 714 G714A|(ORF1ab_polyprotein:G449A(G150D))|(ORF1a_polyprotein:G449A(G150D)) 48 0.161 14 0.026 2 0.008 3 0.187 0.008 0.195
726 A726G|(ORF1ab_polyprotein:A461G(Y154C))|(ORF1a_polyprotein:A461G(Y154C)) 48 0.171 97 0.286 14 0.029 3 0.486 0 0.486
linked 751 C751T|(ORF1ab_polyprotein:C486T(N162N))|(ORF1a_polyprotein:C486T(N162N)) 59 0.169 118 0.235 2 0.003 190 0.100 4 0.404 0.10300000000000001 0.507
804 G804A|(ORF1ab_polyprotein:G539A(G180E))|(ORF1a_polyprotein:G539A(G180E)) 77 0.267 100 0.291 2 0.558 0 0.558
835 C835T|(ORF1ab_polyprotein:C570T(F190F))|(ORF1a_polyprotein:C570T(F190F)) 83 0.288 157 0.462 118 0.259 2 0.008 3 0.002 2 0.003 6 1.009 0.013000000000000001 1.0219999999999998
1072 A1072G|(ORF1ab_polyprotein:A807G(E269E))|(ORF1a_polyprotein:A807G(E269E)) 5 0.002 2 0.001 586 0.236 2 0.002 4 0.001 5 0.239 0.003 0.242
1102 C1102T|(ORF1ab_polyprotein:C837T(S279S))|(ORF1a_polyprotein:C837T(S279S)) 4 0.002 591 0.232 2 0.001 4 0.001 4 0.23500000000000001 0.001 0.23600000000000002
1154 A1154G|(ORF1ab_polyprotein:A889G(M297V))|(ORF1a_polyprotein:A889G(M297V)) 460 0.180 702 0.390 8 0.003 4 0.003 4 0.5700000000000001 0.006 0.5760000000000001
1473 C1473T|(ORF1ab_polyprotein:C1208T(T403I))|(ORF1a_polyprotein:C1208T(T403I)) 13 0.134 154 0.119 2 0.007 3 0.253 0.007 0.26
1593 C1593T|(ORF1ab_polyprotein:C1328T(S443F))|(ORF1a_polyprotein:C1328T(S443F)) 4 0.003 3 0.002 826 0.235 2 0.001 3 0.002 5 0.003 4 0.002 7 0.24 0.008 0.248
1598 G1598T|(ORF1ab_polyprotein:G1333T(G445C))|(ORF1a_polyprotein:G1333T(G445C)) 377 0.318 873 0.245 3 0.001 3 0.563 0.001 0.564
1605 A1605G|(ORF1ab_polyprotein:A1340G(N447S))|(ORF1a_polyprotein:A1340G(N447S)) 2 0.002 429 0.238 2 0.24 0 0.24
1616 C1616A|(ORF1ab_polyprotein:C1351A(L451I))|(ORF1a_polyprotein:C1351A(L451I)) 561 0.406 21 0.011 17 0.007 1961 0.463 2 0.001 2 0.003 6 0.887 0.004 0.891
1913 C1913T|(ORF1ab_polyprotein:C1648T(R550C))|(ORF1a_polyprotein:C1648T(R550C)) 6 0.003 2998 0.272 5 0.001 3 0.275 0.001 0.276
2192 A2192G|(ORF1ab_polyprotein:A1927G(R643G))|(ORF1a_polyprotein:A1927G(R643G)) 2 0.002 948 0.480 2 0.482 0 0.482
2516 G2516T|(ORF1ab_polyprotein:G2251T(V751L))|(ORF1a_polyprotein:G2251T(V751L)) 77 0.344 9 0.020 25 0.028 336 0.325 4 0.7170000000000001 0 0.7170000000000001
2899 T2899G|(ORF1ab_polyprotein:T2634G(A878A))|(ORF1a_polyprotein:T2634G(A878A)) 22 0.149 13 0.106 2 0.255 0 0.255
3049 T3049A|(ORF1ab_polyprotein:T2784A(D928E))|(ORF1a_polyprotein:T2784A(D928E)) 20 0.149 12 0.088 2 0.237 0 0.237
3177 C3177T|(ORF1ab_polyprotein:C2912T(P971L))|(ORF1a_polyprotein:C2912T(P971L)) 4 0.014 223 0.146 5 0.001 3 0.001 3 0.002 5 0.16 0.004 0.164
3253 RATG13 C3253T|(ORF1ab_polyprotein:C2988T(D996D))|(ORF1a_polyprotein:C2988T(D996D)) 2 0.003 272 0.166 2 0.169 0 0.169
3283 T3283A|(ORF1ab_polyprotein:T3018A(V1006V))|(ORF1a_polyprotein:T3018A(V1006V)) 247 0.156 187 0.185 1462 0.528 3 0.869 0 0.869
3442 RATG13 T3442C|(ORF1ab_polyprotein:T3177C(N1059N))|(ORF1a_polyprotein:T3177C(N1059N)) 269 0.210 589 0.256 114 0.028 4 0.001 3 0.001 2 0.001 6 0.494 0.003 0.497
3619 RATG13 C3619T|(ORF1ab_polyprotein:C3354T(V1118V))|(ORF1a_polyprotein:C3354T(V1118V)) 2 0.001 2 0.001 714 0.257 6 0.001 2 0.001 5 0.259 0.002 0.261
4181 G4181A|(ORF1ab_polyprotein:G3916A(A1306T))|(ORF1a_polyprotein:G3916A(A1306T)) 315 0.411 230 0.219 2 0.63 0 0.63
4320 C4320-4320del|(ORF1ab_polyprotein:4055-4055del(1352fs))|(ORF1a_polyprotein:4055-4055del(1352fs)) 118 0.192 2 0.001 2 0.002 3 0.193 0.002 0.195
4893 C4893T|(ORF1ab_polyprotein:C4628T(T1543I))|(ORF1a_polyprotein:C4628T(T1543I)) 292 0.375 6 0.002 5 0.002 5 0.001 4 0.377 0.003 0.38
5078 A5078T|(ORF1ab_polyprotein:A4813T(T1605S))|(ORF1a_polyprotein:A4813T(T1605S)) 370 0.997 2 0.001 3 0.005 3 0.998 0.005 1.003
5183 C5183T|(ORF1ab_polyprotein:C4918T(P1640S))|(ORF1a_polyprotein:C4918T(P1640S)) 358 0.989 2 0.001 2 0.004 3 0.99 0.004 0.994
5333 5333-insertT|(ORF1ab_polyprotein:5068insertT(1690fs))|(ORF1a_polyprotein:5068insertT(1690fs)) 80 0.068 178 0.125 2 0.193 0 0.193
5374 RATG13 G5374A|(ORF1ab_polyprotein:G5109A(R1703R))|(ORF1a_polyprotein:G5109A(R1703R)) 2 0.001 390 0.271 3 0.003 3 0.001 4 0.272 0.004 0.276
5621 C5621T|(ORF1ab_polyprotein:C5356T(P1786S))|(ORF1a_polyprotein:C5356T(P1786S)) 14 0.002 1217 0.161 604 0.065 7 0.001 4 0.228 0.001 0.229
5648 RATG13 A5648C|(ORF1ab_polyprotein:A5383C(K1795Q))|(ORF1a_polyprotein:A5383C(K1795Q)) 1467 0.241 1771 0.232 825 0.107 39 1.000 6 0.001 5 1.58 0.001 1.581
5792 G5792A|(ORF1ab_polyprotein:G5527A(E1843K))|(ORF1a_polyprotein:G5527A(E1843K)) 1613 0.233 2009 0.230 7 0.001 892 0.101 47 0.979 8 0.001 7 0.001 5 0.001 8 1.544 0.003 1.547
6116 G6116A|(ORF1ab_polyprotein:G5851A(A1951T))|(ORF1a_polyprotein:G5851A(A1951T)) 3 0.001 449 0.160 2 0.001 3 0.161 0.001 0.162
7086 C7086A|(ORF1ab_polyprotein:C6821A(T2274N))|(ORF1a_polyprotein:C6821A(T2274N)) 209 0.136 3 0.001 1020 0.314 2 0.001 4 0.451 0.001 0.452
8578 G8578A|(ORF1ab_polyprotein:G8313A(K2771K))|(ORF1a_polyprotein:G8313A(K2771K)) 358 0.111 820 0.107 8 0.001 3 0.218 0.001 0.219
8639 C8639A|(ORF1ab_polyprotein:C8374A(P2792T))|(ORF1a_polyprotein:C8374A(P2792T)) 5 0.002 1344 0.341 10 0.001 7 0.002 7 0.003 3 0.001 6 0.343 0.007 0.35000000000000003
8660 C8660T|(ORF1ab_polyprotein:C8395T(H2799Y))|(ORF1a_polyprotein:C8395T(H2799Y)) 4 0.002 457 0.178 2 0.18 0 0.18
8692 C8692T|(ORF1ab_polyprotein:C8427T(Y2809Y))|(ORF1a_polyprotein:C8427T(Y2809Y)) 9 0.012 3 0.001 948 0.292 3 0.305 0 0.305
9146 A9146T|(ORF1ab_polyprotein:A8881T(I2961F))|(ORF1a_polyprotein:A8881T(I2961F)) 62 0.488 134 0.345 2 0.833 0 0.833
9203 G9203A|(ORF1ab_polyprotein:G8938A(D2980N))|(ORF1a_polyprotein:G8938A(D2980N)) 59 0.218 140 0.288 123 0.079 3 0.003 109 0.150 5 0.738 0 0.738
9745 C9745A|(ORF1ab_polyprotein:C9480A(Y3160*))|(ORF1a_polyprotein:C9480A(Y3160*)) 5 0.002 794 0.188 9 0.002 13 0.002 4 0.001 5 0.19 0.005 0.195
9746 C9746T|(ORF1ab_polyprotein:C9481T(L3161L))|(ORF1a_polyprotein:C9481T(L3161L)) 3 0.001 795 0.188 3 0.001 3 0.189 0.001 0.19
9750 A9750G|(ORF1ab_polyprotein:A9485G(K3162R))|(ORF1a_polyprotein:A9485G(K3162R)) 4 0.002 1513 0.361 7 0.001 1621 0.496 5 0.001 18 0.003 4 0.001 7 0.86 0.005 0.865
10156 RATG13 C10156T|(ORF1ab_polyprotein:C9891T(D3297D))|(ORF1a_polyprotein:C9891T(D3297D)) 2 0.002 4 0.001 4 0.001 720 0.207 4 0.211 0 0.211
linked 10198 C10198T|(ORF1ab_polyprotein:C9933T(D3311D))|(ORF1a_polyprotein:C9933T(D3311D)) 1601 0.994 2471 0.998 1706 0.999 3327 0.993 3619 0.996 3942 0.998 7105 0.999 3345 0.581 1395 0.993 1442 0.992 2562 0.999 5239 0.997 6114 0.998 2686 0.999 2451 0.994 4829 0.999 2997 0.998 3580 0.999 10727 0.999 3937 0.998 4764 0.997 6000 0.997 5804 0.998 23 7.558 14.956999999999997 22.514999999999997
10317 A10317G|(ORF1ab_polyprotein:A10052G(K3351R))|(ORF1a_polyprotein:A10052G(K3351R)) 2 0.001 875 0.226 2 0.001 3 0.227 0.001 0.228
10319 C10319T|(ORF1ab_polyprotein:C10054T(L3352F))|(ORF1a_polyprotein:C10054T(L3352F)) 3 0.002 9 0.003 2075 0.375 3 0.002 4 0.38 0.002 0.382
11081 RATG13 T11081G|(ORF1ab_polyprotein:T10816G(L3606V))|(ORF1a_polyprotein:T10816G(L3606V)) 652 0.438 11 0.003 2 0.441 0 0.441
11550 G11550T|(ORF1ab_polyprotein:G11285T(C3762F))|(ORF1a_polyprotein:G11285T(C3762F)) 3 0.002 409 0.206 3 0.002 3 0.002 5 0.001 5 0.208 0.005 0.213
11650 RATG13 C11650T|(ORF1ab_polyprotein:C11385T(G3795G))|(ORF1a_polyprotein:C11385T(G3795G)) 423 0.334 2 0.001 2 0.001 4 0.002 2 0.001 2 0.002 4 0.003 7 0.341 0.003 0.34400000000000003
12080 G12080A|(ORF1ab_polyprotein:G11815A(A3939T))|(ORF1a_polyprotein:G11815A(A3939T)) 191 0.504 2 0.002 2 0.506 0 0.506
12100 C12100T|(ORF1ab_polyprotein:C11835T(A3945A))|(ORF1a_polyprotein:C11835T(A3945A)) 2 0.005 168 0.196 2 0.001 3 0.201 0.001 0.202
12674 G12674A|(ORF1ab_polyprotein:G12409A(V4137I))|(ORF1a_polyprotein:G12409A(V4137I)) 84 0.293 3 0.001 10 0.001 5 0.001 4 0.294 0.002 0.296
13047 C13047T|(ORF1ab_polyprotein:C12782T(P4261L))|(ORF1a_polyprotein:C12782T(P4261L)) 148 0.319 3 0.001 4 0.003 3 0.32 0.003 0.323
13368 C13368T|(ORF1ab_polyprotein:C13103T(T4368I))|(ORF1a_polyprotein:C13103T(T4368I)) 5 0.001 672 0.335 10 0.001 2 0.001 4 0.336 0.002 0.338
13424 C13424T|(ORF1ab_polyprotein:C13159T(R4387C))|(ORF1a_polyprotein:C13159T(R4387C)) 134 0.453 5 0.001 12 0.001 3 0.454 0.001 0.455
13469 G13469T|(ORF1ab_polyprotein:G13205T(R4402L))|(ORF1a_polyprotein:G13204T(G4402W)) 2 0.001 552 0.306 3 0.001 3 0.307 0.001 0.308
13860 RATG13 C13860T|(ORF1ab_polyprotein:C13596T(D4532D)) 444 0.180 3 0.002 2 0.182 0 0.182
14023 G14023A|(ORF1ab_polyprotein:G13759A(A4587T)) 125 0.329 2 0.001 2 0.002 3 0.33 0.002 0.332
14115 C14115T|(ORF1ab_polyprotein:C13851T(T4617T)) 480 0.216 2 0.001 3 0.002 3 0.002 4 0.217 0.004 0.221
14246 A14246G|(ORF1ab_polyprotein:A13982G(D4661G)) 3 0.002 437 0.289 761 0.203 3 0.002 3 0.001 5 0.494 0.003 0.497
14268 G14268A|(ORF1ab_polyprotein:G14004A(T4668T)) 355 0.265 2 0.001 4 0.001 3 0.266 0.001 0.267
ubiq 14408 C14408T|(ORF1ab_polyprotein:C14144T(P4715L)) 382 0.992 2086 0.998 1479 0.999 470 0.996 1505 0.998 2434 0.999 4398 0.998 1293 0.997 1516 0.994 265 1.000 3714 0.999 2436 0.998 3047 0.997 1146 0.998 1543 0.994 6254 1.000 2209 0.999 2036 1.000 4677 0.999 2886 0.999 479 0.994 6518 0.999 2365 1.000 23 7.976999999999999 14.97 22.947
15237 RATG13 C15237T|(ORF1ab_polyprotein:C14973T(H4991H)) 129 0.185 2 0.001 4 0.002 3 0.186 0.002 0.188
15826 G15826A|(ORF1ab_polyprotein:G15562A(E5188K)) 5 0.002 1519 0.202 8 0.001 3 0.20400000000000001 0.001 0.20500000000000002
linked 15930 T15930C|(ORF1ab_polyprotein:T15666C(P5222P)) 1758 0.220 2849 0.242 6 0.001 2448 0.134 4 0.46199999999999997 0.135 0.597
15933 C15933T|(ORF1ab_polyprotein:C15669T(Y5223Y)) 2501 0.307 2847 0.233 10 0.002 3 0.54 0.002 0.542
15958 G15958A|(ORF1ab_polyprotein:G15694A(A5232T)) 4 0.001 3301 0.298 7 0.001 6 0.002 17 0.001 5 0.299 0.004 0.303
15979 A15979G|(ORF1ab_polyprotein:A15715G(I5239V)) 6 0.002 1982 0.258 3378 0.296 3 0.556 0 0.556
16008 T16008G|(ORF1ab_polyprotein:T15744G(I5248M)) 7 0.002 5328 0.599 3697 0.294 7 0.001 4 0.895 0.001 0.896
16087 TTGTAC16087-16092del|(ORF1ab_polyprotein:15823-15828del(LY5275-5276del)) 1889 0.219 3270 0.270 2 0.489 0 0.489
16940 T16940C|(ORF1ab_polyprotein:T16676C(L5559S)) 2 0.001 311 0.225 5 0.001 3 0.226 0.001 0.227
17063 A17063T|(ORF1ab_polyprotein:A16799T(K5600M)) 2 0.001 468 0.174 2 0.175 0 0.175
17445 T17445C|(ORF1ab_polyprotein:T17181C(A5727A)) 7 0.002 1591 0.169 10 0.001 13 0.002 4 0.171 0.003 0.17400000000000002
17502 C17502T|(ORF1ab_polyprotein:C17238T(F5746F)) 8 0.002 1614 0.205 1171 0.090 3 0.297 0 0.297
17750 C17750T|(ORF1ab_polyprotein:C17486T(A5829V)) 2 0.001 865 0.279 6 0.003 3 0.28 0.003 0.28300000000000003
18169 G18169A|(ORF1ab_polyprotein:G17905A(G5969S)) 7 0.171 6 0.200 2 0.371 0 0.371
18424 A18424G|(ORF1ab_polyprotein:A18160G(N6054D)) 275 0.165 228 0.120 433 0.246 3 0.531 0 0.531
18555 RATG13 C18555T|(ORF1ab_polyprotein:C18291T(D6097D)) 2 0.004 631 0.093 4 0.003 359 0.257 4 0.357 0 0.357
18975 T18975C|(ORF1ab_polyprotein:T18711C(V6237V)) 865 0.168 6 0.002 1396 0.233 3 0.403 0 0.403
19032 C19032T|(ORF1ab_polyprotein:C18768T(D6256D)) 5 0.001 1283 0.311 14 0.003 4 0.001 4 0.312 0.004 0.316
19524 RATG13 C19524T|(ORF1ab_polyprotein:C19260T(L6420L)) 7 0.002 307 0.208 2 0.002 3 0.21 0.002 0.212
20016 C20016T|(ORF1ab_polyprotein:C19752T(D6584D)) 2 0.333 4 0.167 3 0.300 3 0.8 0 0.8
ubiq 21618 C21618T|(surface_glycoprotein:C56T(T19I)) 1723 0.997 2198 0.958 1627 0.996 1725 0.994 2511 0.999 1827 1.000 2231 0.999 3360 0.999 445 0.996 1314 0.992 3195 0.999 4254 0.999 5280 0.997 1882 1.000 1615 0.993 4209 1.000 2291 0.999 2055 0.998 5154 0.999 3098 0.999 1646 0.998 5718 0.998 2154 1.000 23 7.942 14.966999999999999 22.909
21657 RATG13 T21657C|(surface_glycoprotein:TTC94-96TCT(F32S)) 228 0.110 177 0.075 2 0.185 0 0.185
21658 C21658T|(surface_glycoprotein:C96T(F32F)) 3 0.002 415 0.215 3 0.002 3 0.217 0.002 0.219
21658 C21658T|(surface_glycoprotein:TTC94-96TCT(F32S)) 228 0.109 177 0.075 2 0.184 0 0.184
linked 21760 T21760A|(surface_glycoprotein:T198A(H66Q)) 254 0.150 223 0.129 2 0.009 3 0.002 4 0.279 0.011 0.29000000000000004
21770 G21770C|(surface_glycoprotein:G208C(V70L)) 248 0.149 242 0.144 2 0.001 3 0.293 0.001 0.294
21802 T21802C|(surface_glycoprotein:T240C(D80D)) 2 0.002 231 0.155 3 0.002 231 0.145 4 0.304 0 0.304
21807 C21807T|(surface_glycoprotein:C245T(P82L)) 2 0.001 3 0.003 853 0.204 3 0.001 4 0.208 0.001 0.209
linked 21810 T21810C|(surface_glycoprotein:T248C(V83A)) 769 0.734 755 0.524 966 0.533 953 0.992 844 0.537 759 0.705 2642 0.998 3934 0.996 171 1.000 1416 0.989 594 0.346 2243 0.695 3357 0.925 1785 0.996 1425 0.994 4505 0.997 1594 0.784 451 0.333 6163 0.999 1132 0.501 1324 0.997 5805 0.997 2075 0.998 23 6.019 12.551 18.57
21855 C21855T|(surface_glycoprotein:C293T(S98F)) 447 0.186 4 0.001 5 0.001 3 0.187 0.001 0.188
linked 22088 C22088T|(surface_glycoprotein:C526T(L176F)) 114 0.055 243 0.154 89 0.098 6 0.002 4 0.001 4 0.002 2 0.001 7 0.209 0.10400000000000001 0.313
22104 G22104A|(surface_glycoprotein:G542A(G181E)) 124 0.060 447 0.287 2 0.347 0 0.347
22116 A22116G|(surface_glycoprotein:A554G(N185S)) 560 0.276 3 0.001 2 0.277 0 0.277
22119 T22119A|(surface_glycoprotein:T557A(F186Y)) 250 0.161 4 0.002 2 0.001 4 0.001 4 0.163 0.002 0.165
22185 C22185T|(surface_glycoprotein:C623T(T208M)) 645 0.226 2 0.002 6 0.002 5 0.002 4 0.001 5 0.228 0.005 0.233
22188 C22188T|(surface_glycoprotein:C626T(P209L)) 2 0.004 511 0.273 3 0.001 2 0.001 4 0.278 0.001 0.279
22200 T22200A|(surface_glycoprotein:GTG637-639GAT(V213D)) 2 0.001 182 0.213 2 0.003 2 0.001 4 0.214 0.004 0.218
linked 22200 T22200A|(surface_glycoprotein:T638A(V213E)) 397 0.869 1077 0.693 790 0.662 1278 0.770 1238 0.610 1050 0.554 672 0.786 979 0.993 704 0.996 416 0.837 760 0.550 1763 0.794 2172 0.996 677 1.000 280 0.986 2272 0.998 1688 0.988 2116 0.786 2570 0.999 1098 0.593 1450 0.992 2812 0.996 1749 0.998 23 5.937000000000001 13.509 19.446
22201 G22201T|(surface_glycoprotein:GTG637-639GAT(V213D)) 2 0.001 182 0.212 2 0.003 2 0.001 4 0.213 0.004 0.217
22202 C22202A|(surface_glycoprotein:C640A(R214S)) 213 0.179 3 0.002 3 0.002 3 0.004 4 0.183 0.004 0.187
22600 A22600C|(surface_glycoprotein:A1038C(R346S)) 56 0.800 165 0.426 2 1.226 0 1.226
22661 G22661T|(surface_glycoprotein:G1099T(V367F)) 54 0.794 178 0.501 2 1.295 0 1.295
22674 CCG22674-22676del|(surface_glycoprotein:TCCGCA1111-1116TCAdel(SA371-372Sdel)) 50 0.794 177 0.538 2 1.332 0 1.332
22712 C22712T|(surface_glycoprotein:C1150T(P384S)) 41 0.719 163 0.522 2 1.241 0 1.241
linked 22770 G22770A|(surface_glycoprotein:G1208A(R403K)) 2 0.100 14 0.667 33 0.407 18 0.295 16 0.320 7 0.111 77 0.542 30 0.526 68 0.482 12 0.333 24 0.192 55 0.567 12 2.442 2.1 4.542
ubiq 22992 G22992A|(surface_glycoprotein:G1430A(S477N)) 64 1.000 251 0.992 185 1.000 109 1.000 973 1.000 1001 1.000 724 1.000 311 1.000 221 0.995 119 0.992 1213 1.000 2085 0.999 448 0.998 417 0.998 164 0.994 1172 0.999 561 1.000 1260 1.000 1050 1.000 1386 0.998 602 0.995 817 0.995 296 1.000 23 7.992 14.962999999999997 22.955
23014 A23014C|(surface_glycoprotein:A1452C(E484D)) 59 0.153 87 0.270 2 0.42300000000000004 0 0.42300000000000004
23018 T23018A|(surface_glycoprotein:T1456A(F486I)) 63 0.162 91 0.279 2 0.44100000000000006 0 0.44100000000000006
23031 RATG13 T23031A|(surface_glycoprotein:T1469A(F490Y)) 93 0.181 123 0.272 2 0.008 3 0.453 0.008 0.461
23048 G23048A|(surface_glycoprotein:G1486A(G496S)) 124 0.185 169 0.278 3 0.001 3 0.463 0.001 0.464
23054 RATG13 C23054T|(surface_glycoprotein:CAA1492-1494TAC(Q498Y)) 123 0.181 169 0.274 2 0.455 0 0.455
23056 RATG13 A23056C|(surface_glycoprotein:CAA1492-1494TAC(Q498Y)) 123 0.180 169 0.273 2 0.453 0 0.453
23057 C23057T|(surface_glycoprotein:C1495T(P499S)) 123 0.180 167 0.270 2 0.002 4 0.003 2 0.001 5 0.45 0.006 0.456
23064 A23064C|(surface_glycoprotein:A1502C(N501T)) 157 0.190 215 0.283 2 0.473 0 0.473
linkedubiq 23075 RATG13 T23075C|(surface_glycoprotein:T1513C(Y505H)) 205 0.995 858 0.998 800 0.996 388 0.997 3620 0.999 3536 0.998 2587 0.998 1088 0.999 704 0.989 424 0.995 5469 0.999 8071 0.999 1430 0.999 1335 0.995 586 0.993 3712 0.998 1813 0.998 4926 0.998 3544 0.997 5033 0.997 1968 0.998 2800 0.998 1075 0.999 23 7.98 14.951999999999998 22.932
23119 T23119A|(surface_glycoprotein:T1557A(H519Q)) 267 0.202 333 0.273 2 0.47500000000000003 0 0.47500000000000003
linked 23222 G23222A|(surface_glycoprotein:G1660A(E554K)) 266 0.206 343 0.280 2 0.004 1783 0.355 1255 0.267 488 0.134 155 0.163 2731 0.358 2898 0.264 3147 0.471 2521 0.368 580 0.365 12 1.246 1.989 3.2350000000000003
23271 C23271A|(surface_glycoprotein:C1709A(A570D)) 2 0.001 229 0.103 690 0.229 2 0.003 5 0.003 4 0.002 6 0.336 0.005 0.341
23282 G23282A|(surface_glycoprotein:G1720A(D574N)) 195 0.065 1705 0.334 4 0.001 5 0.002 4 0.399 0.003 0.402
23393 C23393T|(surface_glycoprotein:C1831T(L611F)) 701 0.215 4 0.007 11 0.003 13 0.001 4 0.222 0.004 0.226
linkedubiq 23403 A23403G|(surface_glycoprotein:A1841G(D614G)) 3218 0.978 3136 0.991 5924 0.993 563 0.971 2772 0.988 5765 0.994 7296 0.993 8060 0.992 3313 0.981 4051 0.982 4526 0.995 2860 0.993 7203 0.993 4718 0.993 3843 0.982 12097 0.992 4933 0.992 2332 0.993 2029 0.994 2450 0.988 4169 0.989 2139 0.991 9444 0.993 23 7.9 14.851 22.751
23480 T23480C|(surface_glycoprotein:T1918C(S640P)) 4 0.001 1664 0.261 5 0.001 8 0.002 4 0.262 0.003 0.265
ubiq 23525 C23525T|(surface_glycoprotein:C1963T(H655Y)) 3137 0.994 3147 0.997 4313 0.710 621 0.994 2756 0.999 5679 0.999 7207 1.000 8055 0.999 3351 0.996 4162 0.994 4496 1.000 2941 0.999 7008 0.997 4714 0.997 4014 0.995 12326 0.999 4852 0.999 2279 1.000 2079 0.999 2402 0.999 4099 0.999 2131 0.999 9451 0.999 23 7.691999999999999 14.971 22.663
23587 G23587T|(surface_glycoprotein:G2025T(Q675H)) 11 0.006 44 0.023 1005 0.263 3 0.001 3 0.001 3 0.002 6 0.29200000000000004 0.004 0.29600000000000004
ubiq 23599 T23599G|(surface_glycoprotein:T2037G(N679K)) 1391 0.984 1357 0.956 1895 0.699 289 0.990 1290 0.995 2390 0.998 2992 0.998 3547 0.998 1482 0.986 1993 0.988 1877 0.997 1217 0.998 2881 0.994 1994 0.992 1688 0.983 5307 0.999 2019 0.995 967 0.999 1056 0.998 1038 0.999 1812 0.989 901 0.997 4202 0.999 23 7.618 14.913000000000002 22.531000000000002
linked 23604 C23604A|(surface_glycoprotein:C2042A(P681H)) 1247 0.901 1321 0.959 1834 0.729 281 0.983 907 0.713 1557 0.664 2901 0.989 3461 0.994 1286 0.873 1877 0.972 1154 0.625 930 0.773 2636 0.930 1965 0.997 1428 0.849 4596 0.886 1979 0.996 603 0.633 1032 0.996 295 0.288 1440 0.803 887 0.999 4110 0.997 23 6.9319999999999995 12.617 19.549
23611 G23611A|(surface_glycoprotein:G2049A(R683R)) 2 0.001 238 0.832 2 0.833 0 0.833
23683 RATG13 C23683T|(surface_glycoprotein:C2121T(Y707Y)) 79 0.658 79 0.376 2 1.034 0 1.034
linkedubiq 23854 C23854A|(surface_glycoprotein:C2292A(N764K)) 78 0.975 60 0.984 166 0.988 55 1.000 95 0.990 35 1.000 203 1.000 150 0.993 106 0.922 66 1.000 108 0.991 134 1.000 103 0.972 107 0.849 100 0.980 85 1.000 107 0.982 98 1.000 160 0.994 152 0.987 119 1.000 36 1.000 118 0.992 23 7.93 14.669 22.599
25052 G25052T|(surface_glycoprotein:G3490T(V1164F)) 2 0.004 3 0.001 415 1.000 3 0.002 3 0.003 5 0.003 4 0.002 12 0.003 8 1.005 0.013000000000000001 1.0179999999999998
25056 A25056T|(surface_glycoprotein:A3494T(D1165V)) 2 0.003 398 0.990 2 0.003 2 0.004 4 0.993 0.007 1.0
linked 25416 C25416T|(ORF3a_protein:C24T(F8F)) 1096 0.994 2046 0.865 967 0.796 1689 0.994 3261 0.866 4144 0.609 1924 0.999 1094 0.999 1804 0.824 2478 0.989 4268 0.692 2099 0.781 3847 0.997 1081 0.994 1172 0.990 5494 0.998 2873 0.996 2808 0.668 6335 0.999 4004 0.770 1246 0.995 2716 0.999 6432 0.999 23 7.122 13.690999999999999 20.813
25437 G25437T|(ORF3a_protein:G45T(L15F)) 2 0.002 2 0.001 439 0.238 3 0.002 4 0.241 0.002 0.243
25546 C25546A|(ORF3a_protein:C154A(L52I)) 6 0.003 2 0.001 272 0.993 3 0.997 0 0.997
linked 25584 C25584T|(ORF3a_protein:C192T(T64T)) 550 0.980 1120 0.995 521 0.994 1774 0.983 1726 0.992 4878 0.997 282 0.983 557 0.986 225 0.991 4197 0.999 1587 0.996 2201 0.997 248 0.996 250 0.992 1339 0.996 1548 0.997 3131 0.998 2701 0.997 3774 0.992 259 0.996 259 0.992 2615 0.998 22 6.9239999999999995 14.922999999999996 21.846999999999994
25984 A25984C|(ORF3a_protein:A592C(K198Q)) 2 0.003 258 0.183 3 0.002 3 0.188 0 0.188
ubiq 26060 C26060T|(ORF3a_protein:C668T(T223I)) 1379 0.989 2410 0.996 3186 0.905 2618 0.988 3316 0.997 8069 0.998 422 0.995 656 0.997 606 0.993 1008 0.988 11457 0.999 6648 0.999 4412 0.998 1795 0.998 1111 0.993 5889 0.998 4991 0.998 6324 0.999 3953 0.999 11911 0.998 2856 0.998 3377 0.998 5092 0.998 23 7.865 14.953999999999999 22.819
26309 C26309T|(envelope_protein:C65T(A22V)) 232 0.090 225 0.069 1248 0.564 2 0.002 4 0.001 3 0.001 6 0.723 0.004 0.727
26434 A26434G|(envelope_protein:A190G(N64D)) 323 0.262 1900 0.752 2 0.003 3 1.014 0.003 1.017
26485 TTATATTAGTT26485-26495del 316 0.248 1766 0.715 2 0.963 0 0.963
26533 C26533T|(membrane_glycoprotein:C11T(S4F)) 319 0.247 1868 0.726 2 0.005 3 0.973 0.005 0.978
26538 G26538A|(membrane_glycoprotein:G16A(G6S)) 348 0.314 11 0.015 2 0.003 3 0.329 0.003 0.332
26565 A26565G|(membrane_glycoprotein:A43G(K15E)) 242 0.270 264 0.330 1354 0.724 3 1.324 0 1.324
26571 C26571G|(membrane_glycoprotein:C49G(L17V)) 259 0.335 7 0.012 2 0.34700000000000003 0 0.34700000000000003
26571 C26571T|(membrane_glycoprotein:C49T(L17F)) 239 0.275 1327 0.730 2 1.005 0 1.005
26590 T26590C|(membrane_glycoprotein:T68C(V23A)) 208 0.247 1138 0.703 2 0.002 3 0.95 0.002 0.952
26605 T26605A|(membrane_glycoprotein:T83A(F28Y)) 216 0.199 827 0.555 2 0.754 0 0.754
26645 C26645T|(membrane_glycoprotein:C123T(N41N)) 4 0.002 380 0.134 136 0.189 2 0.002 2 0.001 5 0.325 0.003 0.328
26673 T26673C|(membrane_glycoprotein:T151C(L51L)) 634 0.307 3 0.002 4 0.002 257 0.130 177 0.245 60 0.040 4 0.003 5 0.001 5 0.004 4 0.001 10 0.726 0.009000000000000001 0.735
linked 26681 C26681T|(membrane_glycoprotein:C159T(F53F)) 5 0.005 327 0.187 73 0.031 254 0.122 307 0.088 190 0.250 63 0.041 245 0.102 3 0.002 1065 0.185 549 0.131 42 0.033 864 0.263 196 0.045 84 0.081 15 0.7240000000000001 0.842 1.566
26781 C26781A|(membrane_glycoprotein:C259A(L87I)) 2 0.001 328 0.111 354 0.121 264 0.246 101 0.048 6 0.002 3 0.002 7 0.001 2 0.001 9 0.527 0.006 0.533
26803 G26803A|(membrane_glycoprotein:G281A(S94N)) 4 0.001 273 0.267 89 0.046 4 0.002 3 0.002 2 0.001 3 0.001 7 0.314 0.006 0.32
26842 G26842A|(membrane_glycoprotein:G320A(R107H)) 5 0.004 283 0.104 216 0.081 6 0.002 3 0.002 5 0.189 0.004 0.193
26861 T26861C|(membrane_glycoprotein:T339C(N113N)) 690 0.263 3 0.001 110 0.043 3 0.002 6 0.002 4 0.002 5 0.001 7 0.309 0.005 0.314
26879 T26879C|(membrane_glycoprotein:T357C(L119L)) 3 0.003 417 0.167 314 0.138 3 0.001 3 0.002 2 0.001 6 0.30800000000000005 0.004 0.31200000000000006
26882 C26882A|(membrane_glycoprotein:C360A(L120L)) 2 0.002 418 0.168 8 0.003 313 0.137 7 0.002 5 0.31000000000000005 0.002 0.31200000000000006
linked 26908 T26908A|(membrane_glycoprotein:CTG385-387CAA(L129Q)) 137 0.076 81 0.049 2 0.125 0 0.125
linked 26909 G26909A|(membrane_glycoprotein:CTG385-387CAA(L129Q)) 137 0.076 81 0.049 2 0.125 0 0.125
26934 C26934A|(membrane_glycoprotein:C412A(L138I)) 2 0.003 246 0.239 3 0.002 84 0.082 135 0.303 59 0.067 6 0.696 0 0.696
ubiq 27259 A27259C|(ORF6_protein:A58C(R20R)) 3428 0.989 4461 0.847 7059 0.998 2887 0.989 5152 0.998 7980 0.995 3867 0.999 2901 0.996 3196 0.990 2720 0.991 7534 0.998 8861 0.997 10667 0.998 5373 0.996 4434 0.990 5401 0.998 9986 0.998 6279 0.998 6601 0.998 11194 0.993 6465 0.997 8084 0.998 9127 0.998 23 7.811 14.937999999999999 22.749
ubiq 27382 G27382C|(ORF6_protein:GAT181-183CTC(D61L)) 3578 0.990 4452 0.803 7181 0.999 2960 0.992 5780 0.996 8960 0.999 3948 0.995 3023 0.996 3291 0.987 2687 0.987 8094 0.998 9801 0.997 11202 0.997 5606 0.997 4529 0.991 5491 0.998 10426 0.997 6804 0.999 6612 0.998 12352 0.996 6796 0.996 8440 0.997 9178 0.999 23 7.77 14.934000000000001 22.704
ubiq 27383 A27383T|(ORF6_protein:GAT181-183CTC(D61L)) 3578 0.990 4452 0.803 7181 0.999 2960 0.992 5780 0.996 8960 0.999 3948 0.995 3023 0.996 3291 0.987 2687 0.987 8094 0.998 9801 0.997 11202 0.997 5606 0.997 4529 0.991 5491 0.998 10426 0.997 6804 0.999 6612 0.998 12352 0.996 6796 0.996 8440 0.997 9178 0.999 23 7.77 14.934000000000001 22.704
ubiq 27384 T27384C|(ORF6_protein:GAT181-183CTC(D61L)) 3578 0.990 4452 0.803 7181 0.998 2960 0.992 5780 0.996 8960 0.999 3948 0.995 3023 0.996 3291 0.987 2687 0.987 8094 0.998 9801 0.997 11202 0.997 5606 0.998 4529 0.990 5491 0.998 10426 0.997 6804 0.999 6612 0.998 12352 0.996 6796 0.996 8440 0.997 9178 0.999 23 7.769 14.934000000000003 22.703000000000003
27692 T27692C|(ORF7a_protein:T299C(I100T)) 306 0.226 2 0.004 2 0.23 0 0.23
27792 27792-insertT|(ORF7b:37insertT(13fs)) 549 0.073 937 0.104 120 0.040 57 0.008 4 0.217 0.008 0.225
27793 T27793C|(ORF7b:T38C(F13S)) 2442 0.382 41 0.004 3 0.002 3 0.386 0.002 0.388
linked 27807 C27807T|(ORF7b:C52T(L18L)) 2410 0.987 4240 0.997 4149 0.614 4282 0.988 8418 0.996 7874 0.997 9535 0.996 3159 0.998 2784 0.985 1391 0.991 9397 0.999 12740 0.997 7916 0.998 6262 0.997 3144 0.988 11540 0.998 7553 0.998 10638 0.998 9055 0.998 17540 0.996 7653 0.997 8530 0.997 8716 0.999 23 7.5729999999999995 14.935999999999998 22.508999999999997
27929 RATG13 T27929A|(ORF8_protein:T36A(T12T)) 4 0.001 2602 0.391 11 0.002 9 0.003 4 0.394 0.003 0.397
27964 C27964T|(ORF8_protein:C71T(S24L)) 4 0.001 2596 0.380 4 0.001 5 0.003 18 0.001 13 0.001 6 0.381 0.006 0.387
linked 28045 C28045T|(ORF8_protein:C152T(A51V)) 1815 0.258 497 0.061 4 0.001 515 0.082 4 0.319 0.083 0.402
28065 ATT28065-28067del|(ORF8_protein:172-174del(I58del)) 1352 0.197 729 0.087 2 0.28400000000000003 0 0.28400000000000003
linked 28297 RATG13 T28297C|(nucleocapsid_phosphoprotein:T24C(N8N)) 4005 0.820 4527 0.880 4013 0.576 3933 0.601 2605 0.404 1562 0.210 8465 0.666 13178 0.996 6543 0.900 4522 0.984 4456 0.546 5866 0.653 8078 0.846 8353 0.964 3909 0.701 12495 0.651 7116 0.995 3588 0.516 11383 0.971 7305 0.497 4772 0.886 10102 0.787 10393 0.997 23 5.1530000000000005 11.894 17.047
linked 28311 C28311T|(nucleocapsid_phosphoprotein:C38T(P13L)) 4826 0.987 5218 0.995 4113 0.582 6320 0.988 6189 0.969 6454 0.879 12581 0.996 13073 0.996 7120 0.991 4515 0.989 8130 0.997 8866 0.997 9585 0.997 8827 0.997 5414 0.987 18538 0.995 7240 0.996 6945 0.997 11487 0.998 14408 0.995 5523 0.994 12649 0.996 10251 0.997 23 7.3919999999999995 14.923 22.314999999999998
28376 G28376A|(nucleocapsid_phosphoprotein:G103A(A35T)) 600 0.133 869 0.211 5 0.001 4 0.001 10 0.003 5 0.344 0.005 0.349
28382 RATG13 T28382C|(nucleocapsid_phosphoprotein:T109C(S37P)) 9 0.003 1700 0.345 7 0.002 269 0.051 6 0.001 5 0.001 6 0.40099999999999997 0.002 0.40299999999999997
linked 28447 A28447G|(nucleocapsid_phosphoprotein:A174G(Q58Q)) 235 0.097 2275 0.611 1356 0.398 1925 0.993 2143 0.638 558 0.219 864 0.599 453 0.093 844 0.182 934 0.159 2225 0.422 5 0.003 1886 0.997 718 0.161 14 2.737 2.835 5.572
28472 C28472T|(nucleocapsid_phosphoprotein:C199T(P67S)) 3 0.001 962 0.310 5 0.004 3 0.311 0.004 0.315
28764 G28764T|(nucleocapsid_phosphoprotein:G491T(G164V)) 8 0.002 1261 0.182 8 0.002 2 0.002 4 0.184 0.004 0.188
28814 C28814T|(nucleocapsid_phosphoprotein:C541T(Q181*)) 7 0.002 5 0.001 12 0.002 5 0.001 1189 0.203 2 0.002 6 0.001 7 0.002 8 0.20900000000000002 0.005 0.21400000000000002
29086 A29086T|(nucleocapsid_phosphoprotein:A813T(T271T)) 2 0.002 438 0.373 734 0.326 4 0.002 2 0.002 3 0.001 4 0.001 5 0.002 2 0.003 3 0.001 10 0.7030000000000001 0.010000000000000002 0.7130000000000001
29260 G29260T|(nucleocapsid_phosphoprotein:G987T(T329T)) 4 0.004 4 0.002 1495 0.342 3 0.34800000000000003 0 0.34800000000000003
29477 G29477C|(nucleocapsid_phosphoprotein:G1204C(D402H)) 529 0.312 360 0.135 1449 0.351 3 0.798 0 0.798