MI-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.

Unnamed: 0 Unnamed: 1 Unnamed: 2 Unnamed: 3 SRR26363703 Unnamed: 5 SRR26363704 Unnamed: 7 SRR26363705 Unnamed: 9 SRR26363706 Unnamed: 11 SRR26363707 Unnamed: 13 SRR21729850 Unnamed: 15 SRR21730089 Unnamed: 17 SRR23950347 Unnamed: 19 SRR23982008 Unnamed: 21 SRR24128070 Unnamed: 23 SRR24128162 Unnamed: 25 SRR24433306 Unnamed: 27 SRR24481826 Unnamed: 29 SRR24594794 Unnamed: 31 SRR24594881 Unnamed: 33 Unnamed: 34 Unnamed: 35 Unnamed: 36 Unnamed: 37 Unnamed: 38 Key Unnamed: 40
('2023-05-01', '') ('2023-04-24', '') ('2023-03-28', '') ('2023-03-13', '') ('2022-09-12', '') ('2022-09-12/2022-09-13', '98000.0') ('2022-09-12/2022-09-13', '67500.0') ('2023-03-13/2023-03-14', '98000.0') ('2023-03-13/2023-03-14', '67000.0') ('2023-03-28/2023-03-29', '28000.0') ('2023-03-28/2023-03-29', '52000.0') ('2023-04-24/2023-04-25', '98000.0') ('2023-04-24/2023-04-25', '45000.0') ('2023-05-01/2023-05-02', '98000.0') ('2023-05-01/2023-05-02', '58500.0') Cryptic Sewershed
Linked/Ubiquitous Position Flagged 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 Total samples Positives Sum Negatives Sum Total Sum Non-Cryptic Sewershed
315 G315T|(ORF1ab_polyprotein:G50T(S17I))|(ORF1a_polyprotein:G50T(S17I)) 7287 0.949 2985 0.944 1418 0.936 1605 0.979 2493 0.976 5 4.784 0 4.784
394 T394C|(ORF1ab_polyprotein:T129C(R43R))|(ORF1a_polyprotein:T129C(R43R)) 3796 0.312 2269 0.275 1020 0.144 2453 0.219 590 0.051 5 1.001 0 1.001
871 A871G|(ORF1ab_polyprotein:A606G(K202K))|(ORF1a_polyprotein:A606G(K202K)) 4239 0.242 1837 0.232 175 0.021 48 0.006 4 0.501 0 0.501
913 C913T|(ORF1ab_polyprotein:C648T(S216S))|(ORF1a_polyprotein:C648T(S216S)) 11643 0.865 5239 0.863 4741 0.655 9962 0.985 6487 0.919 5 4.287 0 4.287
1090 RATG13 T1090C|(ORF1ab_polyprotein:T825C(F275F))|(ORF1a_polyprotein:T825C(F275F)) 164 0.065 180 0.09 67 0.149 565 0.432 2 0.002 5 0.738 0 0.738
1330 T1330C|(ORF1ab_polyprotein:T1065C(T355T))|(ORF1a_polyprotein:T1065C(T355T)) 147 0.084 149 0.093 19 0.077 155 0.268 4 0.522 0 0.522
1598 G1598T|(ORF1ab_polyprotein:G1333T(G445C))|(ORF1a_polyprotein:G1333T(G445C)) 4914 0.723 4401 0.707 2000 0.556 5545 0.676 2882 0.452 3 0.002 6 3.114 0.002 3.11599999999999
2182 A2182G|(ORF1ab_polyprotein:A1917G(V639V))|(ORF1a_polyprotein:A1917G(V639V)) 14839 0.568 8154 0.558 1223 0.397 78 0.005 3444 0.522 5 2.05 0 2.05
2228 T2228A|(ORF1ab_polyprotein:T1963A(C655S))|(ORF1a_polyprotein:T1963A(C655S)) 251 0.064 220 0.061 1793 0.405 52 0.041 4 0.571 0 0.571
2445 C2445T|(ORF1ab_polyprotein:C2180T(T727I))|(ORF1a_polyprotein:C2180T(T727I)) 867 0.41 1380 0.414 52 0.149 176 0.296 157 0.191 5 1.46 0 1.46
2476 A2476G|(ORF1ab_polyprotein:A2211G(K737K))|(ORF1a_polyprotein:A2211G(K737K)) 494 0.385 827 0.373 28 0.128 135 0.315 130 0.242 5 1.443 0 1.443
2530 A2530G|(ORF1ab_polyprotein:A2265G(E755E))|(ORF1a_polyprotein:A2265G(E755E)) 2138 0.638 1965 0.679 284 0.344 269 0.607 926 0.589 5 2.857 0 2.857
2881 C2881A|(ORF1ab_polyprotein:C2616A(A872A))|(ORF1a_polyprotein:C2616A(A872A)) 6859 0.959 4297 0.936 150 0.622 930 0.963 852 0.976 5 4.45599999999999 0 4.45599999999999
linkedubiq 3037 RATG13,Delta C3037T|(ORF1ab_polyprotein:C2772T(F924F))|(ORF1a_polyprotein:C2772T(F924F)) 10576 0.998 7157 0.998 487 1 1235 0.988 1424 0.999 6197 0.998 2 1 783 0.997 8 4.983 2.995 7.978
3096 C3096T|(ORF1ab_polyprotein:C2831T(S944L))|(ORF1a_polyprotein:C2831T(S944L)) 8163 0.976 5825 0.958 326 0.457 973 0.967 1185 0.957 5 4.31499999999999 0 4.31499999999999
3176 C3176T|(ORF1ab_polyprotein:C2911T(P971S))|(ORF1a_polyprotein:C2911T(P971S)) 612 0.344 587 0.254 18 0.009 26 0.076 4 0.682999999999999 0 0.682999999999999
3267 RATG13 C3267T|(ORF1ab_polyprotein:C3002T(T1001I))|(ORF1a_polyprotein:C3002T(T1001I)) 928 0.782 2066 0.885 58 0.023 157 0.683 4 2.373 0 2.373
3379 A3379C|(ORF1ab_polyprotein:A3114C(V1038V))|(ORF1a_polyprotein:A3114C(V1038V)) 7 0.012 3 0.003 1263 0.939 7 0.055 4 1.009 0 1.009
3743 C3743T|(ORF1ab_polyprotein:C3478T(H1160Y))|(ORF1a_polyprotein:C3478T(H1160Y)) 11532 0.293 5643 0.36 239 0.045 1968 0.147 164 0.025 5 0.87 0 0.87
3817 C3817A|(ORF1ab_polyprotein:C3552A(D1184E))|(ORF1a_polyprotein:C3552A(D1184E)) 20727 0.536 6000 0.538 3492 0.366 3493 0.249 5473 0.407 5 2.096 0 2.096
3838 RATG13 G3838A|(ORF1ab_polyprotein:G3573A(L1191L))|(ORF1a_polyprotein:G3573A(L1191L)) 9384 0.243 2557 0.232 2998 0.306 4051 0.275 5370 0.383 5 1.439 0 1.439
4041 T4041C|(ORF1ab_polyprotein:T3776C(I1259T))|(ORF1a_polyprotein:T3776C(I1259T)) 3986 0.229 1780 0.298 688 0.191 3168 0.638 1770 0.287 5 1.643 0 1.643
4181 G4181T|(ORF1ab_polyprotein:G3916T(A1306S))|(ORF1a_polyprotein:G3916T(A1306S)) 2066 0.62 2263 0.606 124 0.413 207 0.131 303 0.418 5 2.18799999999999 0 2.18799999999999
4585 T4585C|(ORF1ab_polyprotein:T4320C(D1440D))|(ORF1a_polyprotein:T4320C(D1440D)) 156 0.165 147 0.145 21 0.116 49 0.154 4 0.58 0 0.58
4898 C4898T|(ORF1ab_polyprotein:CAC4633-4635TAT(H1545Y))|(ORF1a_polyprotein:CAC4633-4635TAT(H1545Y)) 4169 0.457 3471 0.468 341 0.253 990 0.204 878 0.377 5 1.759 0 1.759
4900 C4900T|(ORF1ab_polyprotein:C4635T(H1545H))|(ORF1a_polyprotein:C4635T(H1545H)) 4389 0.51 3572 0.504 607 0.455 3735 0.781 1354 0.6 5 2.85 0 2.85
4900 C4900T|(ORF1ab_polyprotein:CAC4633-4635TAT(H1545Y))|(ORF1a_polyprotein:CAC4633-4635TAT(H1545Y)) 4169 0.484 3471 0.49 341 0.256 990 0.207 878 0.389 5 1.826 0 1.826
5388 C5388A|(ORF1ab_polyprotein:C5123A(A1708D))|(ORF1a_polyprotein:C5123A(A1708D)) 9596 0.987 7771 0.986 742 0.684 2845 0.976 4788 0.983 5 4.616 0 4.616
5554 G5554A|(ORF1ab_polyprotein:G5289A(K1763K))|(ORF1a_polyprotein:G5289A(K1763K)) 936 0.104 861 0.112 191 0.159 1141 0.425 34 0.006 5 0.805999999999999 0 0.805999999999999
5648 RATG13 A5648C|(ORF1ab_polyprotein:A5383C(K1795Q))|(ORF1a_polyprotein:A5383C(K1795Q)) 9653 0.985 5356 0.975 5088 0.718 20814 0.991 8315 0.98 31 0.001 6 4.649 0.001 4.65
5986 C5986T|(ORF1ab_polyprotein:C5721T(F1907F))|(ORF1a_polyprotein:C5721T(F1907F)) 1728 0.971 1972 0.977 23 0.742 344 0.917 29 0.617 5 4.224 0 4.224
6513 GTT6513-6515del|(ORF1ab_polyprotein:AGTTTA6247-6252ATAdel(SL2083-2084Idel))|(ORF1a_polyprotein:AGTTTA6247-6252ATAdel(SL2083-2084Idel)) 5 0.005 19 0.018 3 0.429 6 0.074 4 0.526 0 0.526
6609 G6609T|(ORF1ab_polyprotein:G6344T(R2115I))|(ORF1a_polyprotein:G6344T(R2115I)) 2543 0.894 2411 0.882 31 0.795 110 0.476 55 0.519 5 3.566 0 3.566
6841 A6841T|(ORF1ab_polyprotein:A6576T(A2192A))|(ORF1a_polyprotein:A6576T(A2192A)) 340 0.214 301 0.189 13 0.283 3 0.685999999999999 0 0.685999999999999
6954 T6954C|(ORF1ab_polyprotein:T6689C(I2230T))|(ORF1a_polyprotein:T6689C(I2230T)) 414 0.967 1018 0.973 29 0.58 28 0.875 28 0.933 5 4.328 0 4.328
7328 G7328T|(ORF1ab_polyprotein:G7063T(A2355S))|(ORF1a_polyprotein:G7063T(A2355S)) 707 0.388 1239 0.419 73 0.566 583 0.463 30 0.057 5 1.893 0 1.893
7479 A7479G|(ORF1ab_polyprotein:A7214G(N2405S))|(ORF1a_polyprotein:A7214G(N2405S)) 147 0.022 114 0.032 876 0.467 13 0.004 4 0.525 0 0.525
7823 C7823A|(ORF1ab_polyprotein:C7558A(H2520N))|(ORF1a_polyprotein:C7558A(H2520N)) 4925 0.984 4226 0.989 995 0.75 2856 0.989 2863 0.989 5 4.701 0 4.701
8166 T8166C|(ORF1ab_polyprotein:T7901C(I2634T))|(ORF1a_polyprotein:T7901C(I2634T)) 5037 0.416 1360 0.384 219 0.355 14 0.006 4 1.161 0 1.161
8244 A8244T|(ORF1ab_polyprotein:A7979T(Q2660L))|(ORF1a_polyprotein:A7979T(Q2660L)) 3434 0.282 985 0.272 51 0.07 170 0.068 4 0.692 0 0.692
8247 C8247T|(ORF1ab_polyprotein:C7982T(S2661F))|(ORF1a_polyprotein:C7982T(S2661F)) 11484 0.994 3428 0.992 432 0.601 458 0.837 2430 0.987 5 4.411 0 4.411
8653 G8653C|(ORF1ab_polyprotein:G8388C(M2796I))|(ORF1a_polyprotein:G8388C(M2796I)) 6131 0.9 3817 0.916 728 0.547 8713 0.986 278 0.099 5 3.448 0 3.448
9092 G9092T|(ORF1ab_polyprotein:G8827T(V2943F))|(ORF1a_polyprotein:G8827T(V2943F)) 3835 0.972 2976 0.965 118 0.544 1547 0.99 110 0.159 5 3.63 0 3.63
9146 A9146T|(ORF1ab_polyprotein:A8881T(I2961F))|(ORF1a_polyprotein:A8881T(I2961F)) 3531 0.99 2844 0.994 118 0.581 1093 0.753 620 0.958 5 4.276 0 4.276
9204 A9204G|(ORF1ab_polyprotein:A8939G(D2980G))|(ORF1a_polyprotein:A8939G(D2980G)) 3337 0.988 2716 0.994 132 0.644 1268 0.988 558 0.944 5 4.558 0 4.558
9475 T9475C|(ORF1ab_polyprotein:T9210C(A3070A))|(ORF1a_polyprotein:T9210C(A3070A)) 3 0.005 5 0.005 22 0.512 3 0.522 0 0.522
10078 C10078T|(ORF1ab_polyprotein:C9813T(F3271F))|(ORF1a_polyprotein:C9813T(F3271F)) 1912 0.315 927 0.28 158 0.156 499 0.171 30 0.007 5 0.929 0 0.929
10219 A10219G|(ORF1ab_polyprotein:A9954G(E3318E))|(ORF1a_polyprotein:A9954G(E3318E)) 4110 0.253 2698 0.23 91 0.032 11 0.002 4 0.517 0 0.517
10330 T10330C|(ORF1ab_polyprotein:T10065C(D3355D))|(ORF1a_polyprotein:T10065C(D3355D)) 3981 0.242 2643 0.225 68 0.024 19 0.003 4 0.494 0 0.494
10761 A10761G|(ORF1ab_polyprotein:A10496G(K3499R))|(ORF1a_polyprotein:A10496G(K3499R)) 8881 0.972 4391 0.964 3464 0.638 1671 0.967 6773 0.863 5 4.404 0 4.404
11080 T11080C|(ORF1ab_polyprotein:T10815C(F3605F))|(ORF1a_polyprotein:T10815C(F3605F)) 6680 0.952 5220 0.953 2759 0.72 2202 0.946 5284 0.896 5 4.467 0 4.467
11083 G11083T|(ORF1ab_polyprotein:G10818T(L3606F))|(ORF1a_polyprotein:G10818T(L3606F)) 6763 0.965 5264 0.964 2929 0.762 2205 0.95 5696 0.966 2 0.012 6 4.607 0.012 4.619
11092 T11092C|(ORF1ab_polyprotein:T10827C(N3609N))|(ORF1a_polyprotein:T10827C(N3609N)) 1804 0.23 1005 0.17 97 0.024 1408 0.586 12 0.002 5 1.012 0 1.012
ubiq 11288 TCTGGTTTT11288-11296del|(ORF1ab_polyprotein:11023-11031del(SGF3675-3677del))|(ORF1a_polyprotein:11023-11031del(SGF3675-3677del)) 12781 0.992 9213 0.99 6466 0.997 4526 0.992 10834 0.991 138 0.993 82 1 53 1 2977 0.997 9 4.962 3.99 8.952
11522 T11522G|(ORF1ab_polyprotein:T11257G(F3753V))|(ORF1a_polyprotein:T11257G(F3753V)) 12952 0.986 9349 0.989 170 0.708 22977 0.982 910 0.925 5 4.59 0 4.59
12162 A12162G|(ORF1ab_polyprotein:A11897G(Q3966R))|(ORF1a_polyprotein:A11897G(Q3966R)) 7633 0.989 5922 0.991 3630 0.771 15551 0.987 8019 0.985 5 4.723 0 4.723
12823 C12823T|(ORF1ab_polyprotein:C12558T(S4186S))|(ORF1a_polyprotein:C12558T(S4186S)) 2446 0.433 2108 0.447 482 0.439 2440 0.395 1350 0.513 5 2.227 0 2.227
13767 C13767T|(ORF1ab_polyprotein:C13503T(D4501D)) 27482 0.995 7307 0.94 6938 0.8 16246 0.987 11611 0.987 5 4.709 0 4.709
14126 G14126A|(ORF1ab_polyprotein:G13862A(S4621N)) 5660 0.646 3247 0.603 760 0.424 2 0.002 4 1.675 0 1.675
14232 T14232G|(ORF1ab_polyprotein:T13968G(P4656P)) 2306 0.201 1542 0.214 602 0.243 856 0.686 6 0.003 5 1.347 0 1.347
ubiq 14408 Delta C14408T|(ORF1ab_polyprotein:C14144T(P4715L)) 5408 0.998 4407 0.998 537 1 7575 0.995 1017 0.998 5 1 2 1 81 1 8 4.989 3 7.989
14529 C14529T|(ORF1ab_polyprotein:C14265T(S4755S)) 713 0.125 776 0.151 48 0.162 858 0.085 4 0.523 0 0.523
14676 C14676T|(ORF1ab_polyprotein:C14412T(P4804P)) 3635 0.995 3559 0.994 171 0.76 6518 0.987 849 0.993 5 4.729 0 4.729
15279 RATG13 C15279T|(ORF1ab_polyprotein:C15015T(H5005H)) 3886 0.996 3049 0.995 101 0.835 3945 0.985 586 0.992 5 4.803 0 4.803
15720 RATG13 C15720T|(ORF1ab_polyprotein:C15456T(D5152D)) 13636 0.99 9238 0.994 1221 0.78 20232 0.986 11732 0.991 5 4.741 0 4.741
15942 A15942G|(ORF1ab_polyprotein:A15678G(P5226P)) 5850 0.397 2482 0.371 34 0.315 4649 0.355 368 0.465 5 1.903 0 1.903
16076 A16076C|(ORF1ab_polyprotein:A15812C(D5271A)) 10793 0.47 4391 0.43 48 0.316 6496 0.381 610 0.534 5 2.131 0 2.131
16076 A16076G|(ORF1ab_polyprotein:A15812G(D5271G)) 9704 0.423 4406 0.431 43 0.283 3539 0.208 113 0.099 5 1.444 0 1.444
16135 A16135C|(ORF1ab_polyprotein:A15871C(M5291L)) 7517 0.326 3309 0.31 35 0.193 3055 0.173 67 0.048 5 1.05 0 1.05
16175 C16175A|(ORF1ab_polyprotein:ACT15910-15912AAC(T5304N)) 19284 0.974 9525 0.962 122 0.587 15605 0.981 448 0.312 5 3.816 0 3.816
16176 T16176C|(ORF1ab_polyprotein:ACT15910-15912AAC(T5304N)) 19284 0.974 9525 0.962 122 0.587 15605 0.982 448 0.315 5 3.82 0 3.82
16176 T16176C|(ORF1ab_polyprotein:T15912C(T5304T)) 387 0.02 323 0.033 18 0.087 32 0.002 886 0.623 5 0.765 0 0.765
16374 T16374C|(ORF1ab_polyprotein:T16110C(N5370N)) 3389 0.406 2446 0.417 113 0.402 13 0.001 32 0.025 5 1.251 0 1.251
16813 G16813T|(ORF1ab_polyprotein:G16549T(V5517L)) 575 0.06 613 0.089 933 0.2 7919 0.674 44 0.001 10 0.001 2 0.002 7 1.023 0.004 1.027
16926 T16926C|(ORF1ab_polyprotein:T16662C(H5554H)) 828 0.061 758 0.08 934 0.137 7736 0.468 4 0.746 0 0.746
17615 A17615G|(ORF1ab_polyprotein:A17351G(K5784R)) 7648 0.989 5515 0.99 3390 0.646 33284 0.992 6121 0.974 5 4.591 0 4.591
17742 T17742C|(ORF1ab_polyprotein:T17478C(R5826R)) 3670 0.329 1683 0.285 17 0.019 10 0.008 4 0.641 0 0.641
17781 T17781C|(ORF1ab_polyprotein:T17517C(Y5839Y)) 4637 0.359 2461 0.358 351 0.363 811 0.307 791 0.565 5 1.952 0 1.952
18312 C18312T|(ORF1ab_polyprotein:C18048T(V6016V)) 11093 0.916 8814 0.868 1414 0.382 1816 0.899 8266 0.903 5 3.968 0 3.968
18513 T18513G|(ORF1ab_polyprotein:T18249G(P6083P)) 10853 0.581 3607 0.553 1041 0.364 1265 0.493 3310 0.42 90 0.001 69 0.005 5 0.002 8 2.411 0.008 2.419
19000 T19000C|(ORF1ab_polyprotein:T18736C(L6246L)) 7320 0.478 3181 0.427 289 0.215 509 0.183 4 1.303 0 1.303
19314 A19314C|(ORF1ab_polyprotein:A19050C(A6350A)) 2323 0.414 846 0.344 39 0.108 53 0.04 4 0.905999999999999 0 0.905999999999999
19902 A19902G|(ORF1ab_polyprotein:A19638G(A6546A)) 199 0.108 105 0.104 23 0.307 87 0.245 4 0.764 0 0.764
19956 T19956C|(ORF1ab_polyprotein:T19692C(T6564T)) 951 0.354 482 0.33 59 0.641 140 0.253 150 0.586 5 2.164 0 2.164
20398 G20398A|(ORF1ab_polyprotein:G20134A(E6712K)) 5065 0.892 2390 0.797 102 0.523 809 0.646 1353 0.899 5 3.757 0 3.757
20409 T20409G|(ORF1ab_polyprotein:T20145G(F6715L)) 6155 0.983 3484 0.968 173 0.638 1632 0.971 1595 0.947 5 4.507 0 4.507
20427 T20427C|(ORF1ab_polyprotein:T20163C(I6721I)) 1170 0.169 954 0.226 63 0.231 552 0.255 5 0.003 5 0.884 0 0.884
21137 A21137G|(ORF1ab_polyprotein:A20873G(K6958R)) 3303 0.993 2434 0.997 155 0.633 3308 0.982 859 0.932 5 4.537 0 4.537
21304 C21304A|(ORF1ab_polyprotein:CGC21040-21042AAC(R7014N)) 926 0.595 746 0.597 28 0.231 448 0.216 62 0.123 5 1.762 0 1.762
21304 C21304A|(ORF1ab_polyprotein:CGC21040-21042AAT(R7014N)) 606 0.39 465 0.372 41 0.339 1606 0.774 407 0.804 5 2.679 0 2.679
21305 G21305A|(ORF1ab_polyprotein:CGC21040-21042AAC(R7014N)) 926 0.596 746 0.597 28 0.231 448 0.216 62 0.123 5 1.763 0 1.763
21305 G21305A|(ORF1ab_polyprotein:CGC21040-21042AAT(R7014N)) 606 0.39 465 0.372 41 0.339 1606 0.774 407 0.804 5 2.679 0 2.679
21306 RATG13 C21306T|(ORF1ab_polyprotein:CGC21040-21042AAT(R7014N)) 606 0.388 465 0.369 41 0.333 1606 0.774 407 0.804 5 2.668 0 2.668
21598 T21598C|(surface_glycoprotein:T36C(S12S)) 6274 0.851 6136 0.844 221 0.451 2 0.003 26 0.008 5 2.157 0 2.157
21612 A21612G|(surface_glycoprotein:A50G(N17S)) 3099 0.368 3164 0.375 210 0.339 409 0.455 2717 0.763 5 2.3 0 2.3
21618 C21618A|(surface_glycoprotein:C56A(T19K)) 5730 0.575 5616 0.556 232 0.267 502 0.506 180 0.045 5 1.949 0 1.949
21633 T21633C|(surface_glycoprotein:T71C(L24S)) 12527 0.601 13558 0.624 626 0.518 639 0.484 15 0.004 5 2.231 0 2.231
21635 C21635A|(surface_glycoprotein:C73A(P25T)) 6704 0.317 6288 0.285 212 0.171 3 0.002 12 0.003 5 0.778 0 0.778
21707 C21707T|(surface_glycoprotein:C145T(H49Y)) 20983 0.951 21620 0.945 1010 0.709 1937 0.988 3100 0.663 5 4.256 0 4.256
21752 T21752A|(surface_glycoprotein:T190A(W64R)) 19252 0.975 19810 0.975 938 0.699 1883 0.99 3105 0.783 5 4.422 0 4.422
21760 T21760A|(surface_glycoprotein:T198A(H66Q)) 18265 0.975 18807 0.975 896 0.688 1783 0.988 2989 0.782 5 4.40799999999999 0 4.40799999999999
linked 21765 TACATG21765-21770del|(surface_glycoprotein:ATACATGTC202-210ATCdel(IHV68-70Idel)) 17299 0.971 17749 0.967 847 0.68 1702 0.987 2906 0.814 6 0.857 6 4.419 0.857 5.276
21789 RATG13 C21789T|(surface_glycoprotein:C227T(T76I)) 17473 0.982 18048 0.981 934 0.744 1839 0.987 3303 0.874 5 4.568 0 4.568
21991 TTA21991-21993del|(surface_glycoprotein:GTTTAT427-432GTTdel(VY143-144Vdel)) 407 0.949 533 0.969 45 0.938 110 0.965 26 0.963 5 4.784 0 4.784
22002 A22002C|(surface_glycoprotein:A440C(K147T)) 451 0.96 573 0.966 46 0.719 123 0.992 32 0.97 5 4.607 0 4.607
22014 G22014T|(surface_glycoprotein:G452T(S151I)) 457 0.958 582 0.972 48 0.762 126 0.984 32 0.97 5 4.646 0 4.646
22020 T22020C|(surface_glycoprotein:T458C(M153T)) 198 0.407 309 0.509 9 0.134 3 1.05 0 1.05
22020 T22020G|(surface_glycoprotein:T458G(M153R)) 105 0.216 92 0.152 21 0.163 3 0.531 0 0.531
22104 G22104A|(surface_glycoprotein:G542A(G181E)) 489 0.963 585 0.961 42 0.618 96 0.99 27 0.871 5 4.403 0 4.403
22108 A22108G|(surface_glycoprotein:A546G(K182K)) 4 0.008 10 0.016 6 0.088 21 0.677 4 0.789 0 0.789
22149 A22149G|(surface_glycoprotein:A587G(N196S)) 521 0.954 626 0.975 42 0.778 111 0.982 28 0.683 5 4.372 0 4.372
22305 A22305C|(surface_glycoprotein:A743C(Y248S)) 42 0.677 102 0.797 2 1.474 0 1.474
22332 G22332A|(surface_glycoprotein:G770A(G257D)) 53 0.898 119 0.93 2 1.828 0 1.828
22676 RATG13 G22676A|(surface_glycoprotein:G1114A(A372T)) 7372 0.991 4486 0.994 2000 0.967 5604 0.988 3659 0.994 5 4.934 0 4.934
22770 G22770A|(surface_glycoprotein:G1208A(R403K)) 1128 0.643 701 0.549 278 0.333 196 0.149 13 0.013 5 1.687 0 1.687
22893 A22893G|(surface_glycoprotein:A1331G(K444R)) 5 0.002 26 0.02 181 0.148 714 0.38 1527 0.589 5 1.139 0 1.139
22894 GGTTGG22894-22899del|(surface_glycoprotein:AAGGTTGGT1330-1338AATdel(KVG444-446Ndel)) 2007 0.985 1238 0.957 410 0.339 765 0.412 11 0.004 5 2.697 0 2.697
22896 T22896C|(surface_glycoprotein:T1334C(V445A)) 6 0.003 23 0.018 180 0.149 715 0.376 18 0.007 5 0.553 0 0.553
22899 G22899A|(surface_glycoprotein:G1337A(G446D)) 12 0.006 29 0.022 179 0.146 1115 0.586 2567 0.981 5 1.7409999999999899 0 1.7409999999999899
22907 T22907A|(surface_glycoprotein:T1345A(Y449N)) 2130 0.983 1346 0.98 624 0.481 1975 0.989 1799 0.48 5 3.913 0 3.913
22912 T22912G|(surface_glycoprotein:T1350G(N450K)) 1049 0.265 566 0.256 6 0.005 7 0.002 4 0.528 0 0.528
22917 T22917A|(surface_glycoprotein:T1355A(L452Q)) 2703 0.689 1255 0.587 82 0.058 6 0.001 4 1.335 0 1.335
22920 A22920T|(surface_glycoprotein:A1358T(Y453F)) 3833 0.994 2096 0.991 684 0.483 2094 0.989 2200 0.492 3 0.002 6 3.949 0.002 3.95099999999999
linked 22992 G22992A|(surface_glycoprotein:G1430A(S477N)) 4983 0.992 2979 0.974 1213 0.827 1219 0.467 66 0.013 91 1 29 1 3 1 17 1 1210 0.998 10 3.273 4.998 8.271
linked 23013 A23013C|(surface_glycoprotein:A1451C(E484A)) 262 0.049 179 0.055 577 0.434 1063 0.447 3696 0.838 87 0.989 28 1 11 1 1101 0.995 9 1.823 3.984 5.807
23013 A23013T|(surface_glycoprotein:A1451T(E484V)) 4777 0.901 3019 0.924 751 0.564 1303 0.548 708 0.161 3 0.003 6 3.098 0.003 3.101
23039 C23039A|(surface_glycoprotein:C1477A(Q493K)) 5149 0.983 3170 0.96 258 0.404 1253 0.559 1604 0.392 5 3.298 0 3.298
23042 T23042C|(surface_glycoprotein:T1480C(S494P)) 34 0.006 89 0.027 77 0.126 847 0.379 1849 0.489 5 1.027 0 1.027
linked 23055 A23055G|(surface_glycoprotein:A1493G(Q498R)) 145 0.027 221 0.062 342 0.653 936 0.469 2993 0.99 79 1 30 1 10 1 849 0.998 9 2.201 3.998 6.199
23055 A23055T|(surface_glycoprotein:A1493T(Q498L)) 4286 0.795 2455 0.692 101 0.193 805 0.403 19 0.006 5 2.089 0 2.089
linkedubiq 23063 A23063T|(surface_glycoprotein:A1501T(N501Y)) 5073 0.997 3331 0.999 492 0.988 2005 0.997 2987 0.998 77 1 29 1 10 1 843 0.999 9 4.979 3.999 8.978
23073 G23073A|(surface_glycoprotein:G1511A(G504D)) 4781 0.991 3139 0.989 251 0.553 1759 0.976 2418 0.981 5 4.49 0 4.49
linked 23075 RATG13 T23075C|(surface_glycoprotein:T1513C(Y505H)) 4729 0.98 3034 0.956 386 0.9 1551 0.858 2458 0.998 60 1 20 1 9 1 190 0.271 9 4.692 3.271 7.963
23271 C23271A|(surface_glycoprotein:C1709A(A570D)) 4387 0.986 2631 0.984 699 0.135 4869 0.979 2803 0.843 6 0.001 6 3.927 0.001 3.928
23274 A23274G|(surface_glycoprotein:A1712G(D571G)) 4395 0.987 2631 0.982 701 0.135 4896 0.978 2772 0.821 5 3.903 0 3.903
23321 A23321G|(surface_glycoprotein:A1759G(I587V)) 8953 0.991 4942 0.985 4240 0.581 13865 0.988 528 0.05 5 3.59499999999999 0 3.59499999999999
linkedubiq 23403 Delta A23403G|(surface_glycoprotein:A1841G(D614G)) 13907 0.994 7546 0.995 8790 0.996 23549 0.981 14906 0.996 15802 0.997 10310 0.996 184 0.979 429 0.991 10 1 16596 0.997 11 4.962 5.96 10.922
linkedubiq 23604 C23604A|(surface_glycoprotein:C2042A(P681H)) 5204 0.996 2258 0.994 881 0.991 3575 0.985 2523 0.997 10322 0.998 16412 0.999 85 0.988 2104 0.998 7 1 1579 1 611 0.998 12 4.963 6.981 11.9439999999999
23638 RATG13 C23638T|(surface_glycoprotein:C2076T(I692I)) 5027 0.844 1849 0.868 244 0.691 136 0.901 224 0.141 5 3.445 0 3.445
23642 G23642T|(surface_glycoprotein:G2080T(A694S)) 979 0.143 326 0.133 56 0.14 12 0.071 208 0.12 2 0.002 6 0.607 0.002 0.609
23709 C23709T|(surface_glycoprotein:C2147T(T716I)) 5 0.001 3 0.006 1925 0.8 3 0.807 0 0.807
23877 T23877C|(surface_glycoprotein:T2315C(V772A)) 3032 0.992 1895 0.982 620 0.807 1278 0.984 1335 0.932 5 4.697 0 4.697
24044 C24044T|(surface_glycoprotein:C2482T(L828F)) 6736 0.99 4499 0.99 1179 0.714 6191 0.985 2990 0.981 5 4.66 0 4.66
24197 G24197A|(surface_glycoprotein:G2635A(A879T)) 9424 0.484 4654 0.421 18 0.006 313 0.073 4 0.984 0 0.984
24374 C24374A|(surface_glycoprotein:C2812A(L938I)) 8579 0.473 3928 0.407 1632 0.206 1439 0.168 29 0.004 5 1.258 0 1.258
24383 A24383T|(surface_glycoprotein:A2821T(T941S)) 12279 0.955 6700 0.95 3781 0.511 7832 0.976 3540 0.474 5 3.86599999999999 0 3.86599999999999
24502 C24502A|(surface_glycoprotein:C2940A(I980I)) 8736 0.973 5748 0.957 4630 0.578 10504 0.986 6076 0.744 3 0.001 3 0.006 7 4.23799999999999 0.007 4.24499999999999
24506 T24506G|(surface_glycoprotein:T2944G(S982A)) 8404 0.99 5743 0.992 4948 0.725 10859 0.985 6331 0.971 5 4.663 0 4.663
24914 G24914C|(surface_glycoprotein:G3352C(D1118H)) 25 0.806 85 0.977 7 0.082 69 0.908 4 2.773 0 2.773
25000 C25000A|(surface_glycoprotein:C3438A(D1146E)) 8 0.145 36 0.414 3 0.037 3 0.596 0 0.596
25026 A25026T|(surface_glycoprotein:A3464T(Y1155F)) 45 0.882 71 0.934 3 0.024 12 0.167 4 2.007 0 2.007
25049 G25049A|(surface_glycoprotein:G3487A(D1163N)) 4 0.049 33 0.524 2 0.573 0 0.573
25088 G25088T|(surface_glycoprotein:G3526T(V1176F)) 1453 0.993 1114 0.995 1424 0.727 4237 0.982 1932 0.879 5 4.576 0 4.576
25135 G25135T|(surface_glycoprotein:G3573T(K1191N)) 3008 0.979 2162 0.969 2388 0.699 8460 0.99 4123 0.993 49 0.001 6 4.63 0.001 4.631
25163 C25163A|(surface_glycoprotein:C3601A(Q1201K)) 7314 0.901 4873 0.889 3107 0.472 6968 0.552 3744 0.517 76 0.002 6 3.331 0.002 3.33299999999999
25165 A25165C|(surface_glycoprotein:A3603C(Q1201H)) 728 0.082 526 0.088 1065 0.152 5556 0.436 420 0.056 5 0.814 0 0.814
25207 C25207T|(surface_glycoprotein:C3645T(Y1215Y)) 10926 0.884 7292 0.874 5630 0.558 14490 0.659 5923 0.467 5 3.442 0 3.442
25440 G25440T|(ORF3a_protein:G48T(K16N)) 3163 0.379 1575 0.365 118 0.074 11 0.001 5 0.002 8 0.001 6 0.821 0.001 0.822
25457 A25457G|(ORF3a_protein:A65G(D22G)) 157 0.019 72 0.018 28 0.026 1779 0.228 373 0.25 5 0.541 0 0.541
25475 TTG25475-25477del|(ORF3a_protein:TTTGTT82-87TTTdel(FV28-29Fdel)) 1100 0.127 413 0.097 158 0.139 1298 0.154 15 0.009 5 0.526 0 0.526
25496 T25496A|(ORF3a_protein:T104A(I35K)) 7256 0.819 3686 0.855 645 0.546 4836 0.566 18 0.011 13 0.001 6 2.79699999999999 0.001 2.79799999999999
25534 G25534A|(ORF3a_protein:G142A(V48I)) 3945 0.347 1741 0.318 7 0.006 3 0.002 4 0.672999999999999 0 0.672999999999999
25623 T25623C|(ORF3a_protein:T231C(V77V)) 107 0.014 80 0.021 30 0.033 2264 0.314 213 0.157 5 0.539 0 0.539
25698 A25698C|(ORF3a_protein:A306C(E102D)) 4878 0.694 3132 0.705 189 0.317 2174 0.433 776 0.482 5 2.631 0 2.631
25698 A25698T|(ORF3a_protein:A306T(E102D)) 2027 0.288 1216 0.274 186 0.312 2744 0.546 505 0.314 15 0.001 6 1.734 0.001 1.73499999999999
25906 G25906C|(ORF3a_protein:G514C(G172R)) 8001 0.941 7199 0.917 70 0.335 3581 0.553 64 0.024 5 2.77 0 2.77
26114 A26114T|(ORF3a_protein:A722T(E241V)) 3887 0.134 1751 0.128 285 0.029 5652 0.698 17 0.002 5 0.991 0 0.991
26115 A26115C|(ORF3a_protein:A723C(E241D)) 6451 0.229 2585 0.194 2270 0.233 2138 0.265 94 0.01 2 0.008 6 0.931 0.008 0.939
26116 G26116A|(ORF3a_protein:G724A(E242K)) 6466 0.23 2594 0.194 2271 0.233 2130 0.263 94 0.01 5 0.93 0 0.93
26159 26159-insertTTATGATGGGTT|(ORF3a_protein:GTT766-768GTTATGATGGGTTTTinsert(V256VMMGF)) 15925 0.554 7736 0.598 4091 0.417 5403 0.689 6549 0.732 5 2.98999999999999 0 2.98999999999999
26162 26162-insertTG|(ORF3a_protein:770insertTG(257fs)) 6585 0.262 2367 0.209 724 0.082 13 0.002 93 0.012 5 0.567 0 0.567
26164 26164-insertGGGTTTTAAC|(ORF3a_protein:772insertGGGTTTTAAC(258fs)) 6505 0.259 2345 0.207 723 0.082 60 0.008 4 0.556 0 0.556
26171 T26171A|(ORF3a_protein:T779A(M260K)) 23507 0.92 10452 0.911 4682 0.575 4673 0.689 7524 0.952 5 4.047 0 4.047
26195 C26195T|(ORF3a_protein:C803T(T268M)) 8551 0.302 3013 0.239 955 0.115 23 0.003 4 0.659 0 0.659
26333 C26333T|(envelope_protein:C89T(T30I)) 9587 0.41 4112 0.322 797 0.226 1433 0.182 24 0.006 2 0.008 6 1.146 0.008 1.154
26529 G26529A|(membrane_glycoprotein:G7A(D3N)) 10057 0.528 7937 0.59 1436 0.512 6888 0.668 2841 0.529 5 2.827 0 2.827
26538 G26538A|(membrane_glycoprotein:G16A(G6S)) 4020 0.286 2468 0.237 602 0.254 2602 0.275 194 0.046 5 1.098 0 1.098
26579 A26579T|(membrane_glycoprotein:A57T(Q19H)) 6024 0.589 4830 0.644 950 0.605 5438 0.826 2436 0.964 5 3.628 0 3.628
26609 T26609G|(membrane_glycoprotein:T87G(L29L)) 4264 0.405 2918 0.424 293 0.148 17 0.011 4 0.988 0 0.988
26824 G26824A|(membrane_glycoprotein:G302A(R101K)) 7128 0.352 3970 0.364 3653 0.357 25 0.003 4 1.07599999999999 0 1.07599999999999
26924 A26924G|(membrane_glycoprotein:A402G(L134L)) 8086 0.698 4411 0.779 2376 0.701 2826 0.767 2775 0.983 5 3.928 0 3.928
27157 G27157A|(membrane_glycoprotein:G635A(S212N)) 373 0.081 383 0.128 153 0.375 312 0.412 233 0.35 5 1.34599999999999 0 1.34599999999999
27297 C27297T|(ORF6_protein:C96T(I32I)) 8495 0.322 3637 0.307 1149 0.094 23 0.003 4 0.726 0 0.726
27378 GATT27378-27381del|(ORF6_protein:177-180del(59fs)) 4934 0.201 2017 0.182 944 0.079 452 0.054 4 0.516 0 0.516
27383 ATTA27383-27386del|(ORF6_protein:182-185del(61fs)) 16242 0.72 7664 0.749 8122 0.709 5873 0.965 7317 0.906 5 4.04899999999999 0 4.04899999999999
27752 Delta C27752T|(ORF7a_protein:C359T(T120I)) 5810 0.596 4228 0.564 2975 0.323 3894 0.293 661 0.095 5 1.871 0 1.871
27883 C27883T|(ORF7b:C128T(A43V)) 6562 0.533 3504 0.412 1952 0.111 18 0.001 4 1.057 0 1.057
linked 27889 C27889T 7076 0.52 3740 0.405 2158 0.117 90 0.005 39 0.003 3499 0.769 6 1.05 0.769 1.819
27972 C27972T|(ORF8_protein:C79T(Q27*)) 12428 0.988 8264 0.981 13475 0.718 16892 0.976 13408 0.995 5 4.65799999999999 0 4.65799999999999
28028 GTA28028-28030del|(ORF8_protein:TGGTAT133-138TGTdel(WY45-46Cdel)) 1553 0.147 1419 0.203 2853 0.178 8890 0.657 3320 0.343 5 1.528 0 1.528
28048 G28048T|(ORF8_protein:G155T(R52I)) 10285 0.987 7742 0.986 39315 0.805 16977 0.973 9686 0.988 5 4.739 0 4.739
28061 TTTAA28061-28065del|(ORF8_protein:168-172del(56fs)) 1828 0.157 1782 0.199 9717 0.207 12813 0.71 5573 0.551 5 1.824 0 1.824
28111 A28111G|(ORF8_protein:A218G(Y73C)) 11926 0.987 10148 0.989 28637 0.545 24701 0.973 10395 0.988 5 4.482 0 4.482
28177 T28177C|(ORF8_protein:T284C(L95S)) 1146 0.081 1137 0.093 3127 0.055 8901 0.264 54 0.005 5 0.498 0 0.498
28271 Delta A28271-28271del 17775 0.956 13117 0.944 14654 0.242 43057 0.933 15352 0.955 5 4.03 0 4.03
28280 G28280C|(nucleocapsid_phosphoprotein:GAT7-9CTA(D3L)) 14588 0.947 11401 0.953 10220 0.17 41989 0.93 15132 0.983 5 3.983 0 3.983
28281 A28281T|(nucleocapsid_phosphoprotein:GAT7-9CTA(D3L)) 14588 0.947 11401 0.953 10220 0.17 41989 0.93 15132 0.983 5 3.983 0 3.983
28282 T28282A|(nucleocapsid_phosphoprotein:GAT7-9CTA(D3L)) 14588 0.947 11401 0.953 10220 0.17 41989 0.93 15132 0.983 5 3.983 0 3.983
28295 A28295G|(nucleocapsid_phosphoprotein:A22G(N8D)) 17567 0.975 12472 0.971 25668 0.583 47935 0.91 9487 0.504 5 3.943 0 3.943
28382 RATG13 T28382C|(nucleocapsid_phosphoprotein:T109C(S37P)) 6415 0.459 3509 0.39 4378 0.156 5543 0.154 6305 0.446 5 1.605 0 1.605
28423 G28423A|(nucleocapsid_phosphoprotein:G150A(A50A)) 2011 0.209 1006 0.196 2955 0.132 3573 0.137 155 0.016 5 0.69 0 0.69
28715 A28715G|(nucleocapsid_phosphoprotein:A442G(T148A)) 6365 0.443 4681 0.461 5514 0.45 28074 0.554 5479 0.417 5 2.325 0 2.325
28936 G28936T|(nucleocapsid_phosphoprotein:G663T(L221F)) 1715 0.128 749 0.127 834 0.137 3618 0.133 623 0.117 5 0.642 0 0.642
28976 TCT28976-28978del|(nucleocapsid_phosphoprotein:703-705del(S235del)) 14514 0.98 6260 0.974 5576 0.835 28105 0.927 5910 0.971 5 4.687 0 4.687
29044 RATG13 G29044A|(nucleocapsid_phosphoprotein:G771A(K257K)) 5036 0.34 2006 0.308 363 0.051 121 0.004 76 0.011 5 0.714 0 0.714
29095 RATG13 C29095T|(nucleocapsid_phosphoprotein:C822T(F274F)) 4690 0.334 1608 0.259 85 0.013 74 0.012 4 0.618 0 0.618
29185 T29185A|(nucleocapsid_phosphoprotein:T912A(I304I)) 9860 0.476 6232 0.493 808 0.152 2310 0.085 3860 0.462 3 0.001 6 1.668 0.001 1.66899999999999
29404 T29404C|(nucleocapsid_phosphoprotein:T1131C(D377D)) 12835 0.389 8381 0.397 2739 0.355 37488 0.748 2631 0.238 5 2.127 0 2.127
29449 G29449A|(nucleocapsid_phosphoprotein:G1176A(V392V)) 14407 0.366 7431 0.314 477 0.068 3875 0.087 1472 0.146 5 0.981 0 0.981
29518 RATG13 C29518T|(nucleocapsid_phosphoprotein:C1245T(D415D)) 12841 0.411 5676 0.414 2688 0.245 12429 0.384 1810 0.234 5 1.688 0 1.688
29708 C29708T 36264 0.821 14589 0.802 10057 0.556 38988 0.66 6092 0.397 5 3.236 0 3.236
29758 RATG13 T29758G 35565 0.997 14899 0.997 11953 0.891 47192 0.987 9895 0.863 5 4.735 0 4.735