CO-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.

Linked/Ubiquitous Position Flagged Sequences Count Abundance Count.1 Abundance.1 Count.2 Abundance.2 Count.3 Abundance.3 Count.4 Abundance.4 Count.5 Abundance.5 Count.6 Abundance.6 Count.7 Abundance.7 Count.8 Abundance.8 Count.9 Abundance.9 Count.10 Abundance.10 Count.11 Abundance.11 Count.12 Abundance.12 Count.13 Abundance.13 Count.14 Abundance.14 Total samples Positives Sum Negatives Sum Total Sum Unnamed: 38 Unnamed: 39 Non-Cryptic Sewershed
SRR22710023 SRR22710251 SRR22710252 SRR22710254 SRR22878677 SRR22710162 SRR22710191 SRR22710244 SRR22710245 SRR22710253 SRR22710262 SRR22878903 SRR22878990 SRR23906078 SRR23906430 Key
"('2022-01-13', '53356')" "('2021-12-02', '53356')" "('2021-12-16', '53356')" "('2021-12-16', '268004')" "('2022-03-14', '268004')" "('2021-12-02', '17601')" "('2021-12-16', '54561')" "('2021-12-16', '17601')" "('2021-12-16', '75544')" "('2021-12-16', '89383')" "('2021-12-02', '89383')" "('2022-03-14', '75544')" "('2022-03-14', '25714')" "('2023-01-03', '75544')" "('2023-01-03', '89383')" Cryptic Sewershed
ubiq 241.0 Delta C241T 1255 0.994 1467 1.0 575 1.0 482 0.978 92 1.0 738 0.999 204 0.995 432 0.964 412 0.945 477 1.0 829 0.998 46 1.0 68 1.0 124 0.992 14.0 4.97199999999999 8.893 13.865
1563.0 G1563A|(ORF1ab_polyprotein:G1298A(C433Y))|(ORF1a_polyprotein:G1298A(C433Y)) 32 0.013 24 0.007 469 0.241 3.0 0.261 0.0 0.261
2254.0 A2254G|(ORF1ab_polyprotein:A1989G(Q663Q))|(ORF1a_polyprotein:A1989G(Q663Q)) 10 0.015 201 0.221 46 0.128 12 0.245 2 0.004 2 0.003 6.0 0.609 0.007 0.616
linkedubiq 3037.0 "RATG13,Delta" C3037T|(ORF1ab_polyprotein:C2772T(F924F))|(ORF1a_polyprotein:C2772T(F924F)) 496 0.998 1678 0.997 419 0.998 350 0.989 183 0.995 698 1.0 152 0.993 460 0.998 367 0.997 282 1.0 953 0.998 47 1.0 33 1.0 101 1.0 205 1.0 15.0 4.977 9.986 14.963
3096.0 C3096T|(ORF1ab_polyprotein:C2831T(S944L))|(ORF1a_polyprotein:C2831T(S944L)) 115 0.042 26 0.024 95 0.342 2 0.001 6 0.007 5.0 0.408 0.008 0.416
3731.0 G3731A|(ORF1ab_polyprotein:G3466A(A1156T))|(ORF1a_polyprotein:G3466A(A1156T)) 3 0.001 427 0.199 2 0.002 3.0 0.2 0.002 0.202
4756.0 T4756G|(ORF1ab_polyprotein:T4491G(P1497P))|(ORF1a_polyprotein:T4491G(P1497P)) 10 0.002 411 0.051 229 0.05 2543 0.414 4.0 0.517 0.0 0.517
7178.0 G7178A|(ORF1ab_polyprotein:G6913A(E2305K))|(ORF1a_polyprotein:G6913A(E2305K)) 2 0.001 18 0.295 2.0 0.296 0.0 0.296
7372.0 T7372C|(ORF1ab_polyprotein:T7107C(I2369I))|(ORF1a_polyprotein:T7107C(I2369I)) 2 0.001 809 0.246 2.0 0.247 0.0 0.247
8915.0 T8915G|(ORF1ab_polyprotein:T8650G(F2884V))|(ORF1a_polyprotein:T8650G(F2884V)) 4 0.042 6 0.125 19 0.211 3.0 0.378 0.0 0.378
9042.0 C9042T|(ORF1ab_polyprotein:C8777T(S2926F))|(ORF1a_polyprotein:C8777T(S2926F)) 134 0.043 50 0.045 11 0.407 3.0 0.495 0.0 0.495
linked 9053.0 G9053T|(ORF1ab_polyprotein:G8788T(V2930L))|(ORF1a_polyprotein:G8788T(V2930L)) 63 0.038 3180 0.958 1025 0.82 1142 0.558 17 0.586 1969 0.995 615 0.609 861 0.417 1600 0.806 885 0.491 2523 0.872 11.0 2.96 4.19 7.15
9451.0 C9451T|(ORF1ab_polyprotein:C9186T(Y3062Y))|(ORF1a_polyprotein:C9186T(Y3062Y)) 5 0.004 4 0.286 2.0 0.29 0.0 0.29
9560.0 T9560C|(ORF1ab_polyprotein:T9295C(S3099P))|(ORF1a_polyprotein:T9295C(S3099P)) 20 0.005 257 0.347 2.0 0.352 0.0 0.352
9615.0 C9615T|(ORF1ab_polyprotein:C9350T(T3117I))|(ORF1a_polyprotein:C9350T(T3117I)) 25 0.006 302 0.342 10 0.001 10 0.001 4.0 0.348 0.002 0.35
9778.0 C9778T|(ORF1ab_polyprotein:C9513T(S3171S))|(ORF1a_polyprotein:C9513T(S3171S)) 26 0.008 43 0.006 355 0.066 349 0.078 68 0.113 5.0 0.271 0.0 0.271
ubiq 10029.0 C10029T|(ORF1ab_polyprotein:C9764T(T3255I))|(ORF1a_polyprotein:C9764T(T3255I)) 2238 0.998 3816 0.998 2592 0.962 2031 0.932 1765 0.997 2870 0.995 1066 0.993 2593 0.995 2076 0.932 1979 0.947 3373 0.96 1257 1.0 577 0.99 467 0.998 14.0 4.887 8.81 13.697
12053.0 C12053T|(ORF1ab_polyprotein:C11788T(L3930F))|(ORF1a_polyprotein:C11788T(L3930F)) 28 0.009 215 0.029 180 0.032 212 0.045 48 0.151 5.0 0.266 0.0 0.266
12556.0 A12556C|(ORF1ab_polyprotein:A12291C(E4097D))|(ORF1a_polyprotein:A12291C(E4097D)) 21 0.007 360 0.048 380 0.087 148 0.042 366 0.246 5.0 0.43 0.0 0.43
ubiq 14408.0 Delta C14408T|(ORF1ab_polyprotein:C14144T(P4715L)) 2873 0.996 5944 0.986 4423 0.999 3671 0.991 3319 0.96 4750 0.996 1741 0.996 3797 0.998 3933 0.998 3672 0.998 5548 0.995 5080 0.999 2442 0.964 1453 0.997 14.0 4.932 8.941 13.873
14571.0 C14571T|(ORF1ab_polyprotein:C14307T(D4769D)) 119 0.038 754 0.115 1259 0.308 417 0.114 2381 0.68 5.0 1.255 0.0 1.255
15222.0 RATG13 C15222T|(ORF1ab_polyprotein:C14958T(F4986F)) 36 0.017 443 0.088 115 0.033 112 0.039 4.0 0.177 0.0 0.177
17791.0 A17791-17791del|(ORF1ab_polyprotein:17527-17527del(5843fs)) 11 0.001 242 0.697 8 0.001 12 0.002 4.0 0.698 0.003 0.701
19017.0 RATG13 C19017T|(ORF1ab_polyprotein:C18753T(F6251F)) 858 0.081 1180 0.167 161 0.022 167 0.135 6 0.002 6 0.001 13 0.002 12 0.001 8 0.003 9.0 0.405 0.009 0.414
20178.0 RATG13 C20178T|(ORF1ab_polyprotein:C19914T(V6638V)) 95 0.025 1192 0.151 1822 0.273 75 0.013 1652 0.52 4 0.001 3 0.002 7.0 0.982 0.003 0.985
20874.0 T20874G|(ORF1ab_polyprotein:T20610G(A6870A)) 17 0.005 424 0.178 2.0 0.183 0.0 0.183
22206.0 A22206G|(surface_glycoprotein:A644G(D215G)) 7 0.004 84 0.055 18 0.011 133 0.459 4.0 0.529 0.0 0.529
22289.0 GCTTTA22289-22294del|(surface_glycoprotein:727-732del(AL243-244del)) 3 0.005 9 0.017 18 0.067 55 0.775 4.0 0.864 0.0 0.864
22332.0 G22332A|(surface_glycoprotein:G770A(G257D)) 3 0.005 27 0.36 2.0 0.365 0.0 0.365
22599.0 G22599T|(surface_glycoprotein:G1037T(R346I)) 80 0.022 98 0.012 601 0.12 100 0.02 52 0.221 5.0 0.395 0.0 0.395
22600.0 A22600C|(surface_glycoprotein:A1038C(R346S)) 50 0.014 398 0.05 259 0.051 525 0.104 104 0.443 6 0.001 6.0 0.662 0.001 0.663
22712.0 C22712G|(surface_glycoprotein:C1150G(P384A)) 79 0.034 240 0.034 445 0.11 31 0.211 4.0 0.389 0.0 0.389
22712.0 C22712T|(surface_glycoprotein:C1150T(P384S)) 32 0.014 120 0.017 539 0.133 490 0.126 13 0.088 5.0 0.378 0.0 0.378
22712.0 C22712A|(surface_glycoprotein:C1150A(P384T)) 29 0.012 102 0.015 62 0.422 3.0 0.449 0.0 0.449
22812.0 A22812C|(surface_glycoprotein:A1250C(K417T)) 28 0.019 9 0.021 2 0.006 11 0.611 4.0 0.657 0.0 0.657
linked 22917.0 Delta T22917G|(surface_glycoprotein:T1355G(L452R)) 1304 0.986 426 0.995 307 0.997 15 0.6 1157 0.995 288 1.0 708 1.0 758 0.999 353 0.997 990 0.998 78 0.929 89 0.957 12.0 3.578 7.875 11.453
22958.0 A22958C|(surface_glycoprotein:A1396C(R466R)) 26 0.018 143 0.199 19 0.148 3.0 0.365 0.0 0.365
23039.0 C23039A|(surface_glycoprotein:C1477A(Q493K)) 127 0.111 652 0.144 787 0.288 331 0.145 870 0.649 5.0 1.337 0.0 1.337
23056.0 RATG13 A23056C|(surface_glycoprotein:A1494C(Q498H)) 140 0.101 928 0.198 864 0.305 366 0.154 4.0 0.758 0.0 0.758
linkedubiq 23403.0 Delta A23403G|(surface_glycoprotein:A1841G(D614G)) 4479 0.994 10851 0.994 7172 0.992 7445 0.989 3573 0.994 8451 0.993 5053 0.99 9093 0.988 5785 0.99 5867 0.99 7861 0.993 3248 0.997 3052 0.991 2596 0.986 14.0 4.963 8.918 13.881
23405.0 G23405A|(surface_glycoprotein:G1843A(V615I)) 156 0.013 180 0.023 303 0.037 1733 0.451 4.0 0.524 0.0 0.524
24038.0 G24038T|(surface_glycoprotein:G2476T(V826L)) 315 0.077 223 0.146 150 0.071 29 0.042 4.0 0.335999999999999 0.0 0.335999999999999
24054.0 C24054A|(surface_glycoprotein:C2492A(A831D)) 33 0.024 463 0.593 3 0.001 3.0 0.617 0.001 0.618
24374.0 C24374A|(surface_glycoprotein:C2812A(L938I)) 11 0.004 63 0.011 65 0.394 3.0 0.409 0.0 0.409
linked 24410.0 Delta G24410A|(surface_glycoprotein:G2848A(D950N)) 144 0.047 5917 0.998 3211 0.649 2681 0.548 129 0.717 4784 0.996 1466 0.816 3503 0.627 3491 0.761 2068 0.555 5300 0.942 11.0 2.959 4.697 7.656
24588.0 C24588T|(surface_glycoprotein:C3026T(T1009I)) 39 0.014 1085 0.163 659 0.125 352 0.083 3440 0.651 207 0.038 6.0 1.036 0.038 1.074
25020.0 A25020C|(surface_glycoprotein:A3458C(D1153A)) 9 0.004 43 0.013 77 0.023 106 0.225 4.0 0.265 0.0 0.265
25052.0 G25052T|(surface_glycoprotein:G3490T(V1164F)) 10 0.005 52 0.012 4 0.001 177 0.41 3 0.001 5.0 0.428 0.001 0.429
25156.0 C25156T|(surface_glycoprotein:C3594T(I1198I)) 8 0.004 49 0.009 254 0.243 4 0.001 2 0.002 5.0 0.256 0.003 0.259
25163.0 C25163A|(surface_glycoprotein:C3601A(Q1201K)) 15 0.008 846 0.151 513 0.115 196 0.059 697 0.648 5.0 0.981 0.0 0.981
25169.0 C25169T|(surface_glycoprotein:C3607T(L1203F)) 4 0.002 440 0.079 577 0.128 131 0.039 589 0.554 3 0.001 2 0.001 7.0 0.802 0.002 0.804
25689.0 T25689A|(ORF3a_protein:T297A(A99A)) 16 0.005 163 0.449 2.0 0.454 0.0 0.454
25936.0 C25936G|(ORF3a_protein:C544G(H182D)) 14 0.005 643 0.114 302 0.124 164 0.084 161 0.759 5.0 1.086 0.0 1.086
26256.0 C26256T|(envelope_protein:C12T(F4F)) 32 0.008 23 0.004 163 0.174 3.0 0.186 0.0 0.186
26538.0 G26538A|(membrane_glycoprotein:G16A(G6S)) 101 0.097 1341 0.177 2498 0.413 452 0.133 3199 0.94 11 0.002 6 0.001 7.0 1.76 0.003 1.763
27588.0 T27588C|(ORF7a_protein:T195C(F65F)) 862 0.261 61 0.038 2.0 0.299 0.0 0.299
linked 27638.0 Delta T27638C|(ORF7a_protein:T245C(V82A)) 22 0.017 2970 0.992 1064 0.774 862 0.576 47 0.505 1669 0.973 462 0.644 1044 0.606 1298 0.93 476 0.534 2159 0.97 11.0 2.864 4.657 7.521
linked 28271.0 Delta A28271-28271del 228 0.04 13192 0.959 11771 0.683 7294 0.503 9414 0.553 10569 0.958 5298 0.522 8580 0.539 11736 0.789 8222 0.59 11533 0.894 11.0 2.738 4.292 7.02999999999999
28285.0 T28285C|(nucleocapsid_phosphoprotein:T12C(N4N)) 38 0.007 148 0.011 1331 0.077 60 0.004 5673 0.318 5.0 0.417 0.0 0.417