This table shows the complete data from the mutations.tsv file exactly as it appears in the source. Scroll horizontally to see all columns.
| SRR29849442(1971430) | SRR29914922(2241243) | SRR30022267(1891166) | SRR30022279(2621808) | SRR30133770(2687048) | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ('2024-07-09', '48000') | ('2024-07-16', '48000') | ('2024-07-23', '48000') | ('2024-07-22', '12000') | ('2024-07-30', '48000') | |||||||||||||
| Sequences | Count | Abundance | Count | Abundance | Count | Abundance | Count | Abundance | Count | Abundance | Total samples | Positives Sum | Negatives Sum | Total Sum | |||
| ubiq | 43 | T43C | 3 | 1.000 | 1 | 1.000 | 1 | 1.000 | 3 | 1.0 | 2.0 | 3.0 | |||||
| 138 | A138G | 2 | 0.000 | 1 | 0.000 | 4792 | 0.101 | 2 | 0.000 | 4 | 0.101 | 0.0 | 0.101 | ||||
| 178 | A178G | 3 | 0.000 | 3 | 0.000 | 4834 | 0.101 | 4 | 0.000 | 4 | 0.101 | 0.0 | 0.101 | ||||
| 209 | T209C | 1 | 0.000 | 1 | 0.000 | 1 | 0.000 | 4719 | 0.099 | 3 | 0.000 | 5 | 0.099 | 0.0 | 0.099 | ||
| 335 | C335A|(ORF1ab_polyprotein:C70A(R24S))|(ORF1a_polyprotein:C70A(R24S)) | 2 | 0.000 | 3 | 0.000 | 1 | 0.000 | 19406 | 0.405 | 4 | 0.000 | 5 | 0.405 | 0.0 | 0.405 | ||
| 378 | RATG13 | T378C|(ORF1ab_polyprotein:GTC112-114GCT(V38A))|(ORF1a_polyprotein:GTC112-114GCT(V38A)) | 19378 | 0.404 | 1 | 0.404 | 0 | 0.404 | |||||||||
| 379 | RATG13 | C379T|(ORF1ab_polyprotein:GTC112-114GCT(V38A))|(ORF1a_polyprotein:GTC112-114GCT(V38A)) | 19378 | 0.404 | 1 | 0.404 | 0 | 0.404 | |||||||||
| 526 | G526A|(ORF1ab_polyprotein:G261A(E87E))|(ORF1a_polyprotein:G261A(E87E)) | 22 | 0.098 | 1 | 0.098 | 0 | 0.098 | ||||||||||
| linkedubiq | 670 | T670G|(ORF1ab_polyprotein:T405G(S135R))|(ORF1a_polyprotein:T405G(S135R)) | 38831 | 0.998 | 61333 | 0.999 | 12094 | 0.999 | 36151 | 0.998 | 50742 | 0.998 | 5 | 0.998 | 3.9939999999999998 | 4.992 | |
| 773 | A773G|(ORF1ab_polyprotein:A508G(T170A))|(ORF1a_polyprotein:A508G(T170A)) | 5 | 0.000 | 1 | 0.000 | 5301 | 0.147 | 2 | 0.000 | 4 | 0.147 | 0.0 | 0.147 | ||||
| 805 | G805T|(ORF1ab_polyprotein:G540T(G180G))|(ORF1a_polyprotein:G540T(G180G)) | 4 | 0.000 | 5 | 0.000 | 1 | 0.000 | 5296 | 0.147 | 7 | 0.000 | 5 | 0.147 | 0.0 | 0.147 | ||
| 814 | T814C|(ORF1ab_polyprotein:T549C(T183T))|(ORF1a_polyprotein:T549C(T183T)) | 1 | 0.000 | 1 | 0.000 | 5286 | 0.146 | 6 | 0.000 | 4 | 0.146 | 0.0 | 0.146 | ||||
| linked | 1367 | A1367G|(ORF1ab_polyprotein:A1102G(I368V))|(ORF1a_polyprotein:A1102G(I368V)) | 142 | 0.047 | 1 | 0.047 | 0 | 0.047 | |||||||||
| 1391 | RATG13 | T1391C|(ORF1ab_polyprotein:T1126C(S376P))|(ORF1a_polyprotein:T1126C(S376P)) | 1 | 0.002 | 141 | 0.269 | 2 | 0.269 | 0.002 | 0.271 | |||||||
| 1396 | A1396C|(ORF1ab_polyprotein:A1131C(E377D))|(ORF1a_polyprotein:A1131C(E377D)) | 141 | 0.269 | 1 | 0.001 | 2 | 0.269 | 0.001 | 0.27 | ||||||||
| 1461 | A1461G|(ORF1ab_polyprotein:A1196G(K399R))|(ORF1a_polyprotein:A1196G(K399R)) | 140 | 0.265 | 1 | 0.265 | 0 | 0.265 | ||||||||||
| 1492 | T1492C|(ORF1ab_polyprotein:T1227C(C409C))|(ORF1a_polyprotein:T1227C(C409C)) | 139 | 0.263 | 1 | 0.263 | 0 | 0.263 | ||||||||||
| 1737 | T1737-1737del|(ORF1ab_polyprotein:1472-1472del(491fs))|(ORF1a_polyprotein:1472-1472del(491fs)) | 1953 | 0.111 | 1 | 0.111 | 0 | 0.111 | ||||||||||
| 1852 | AC1852-1853del|(ORF1ab_polyprotein:1587-1588del(529fs))|(ORF1a_polyprotein:1587-1588del(529fs)) | 1767 | 0.099 | 1 | 0.099 | 0 | 0.099 | ||||||||||
| linked | 2280 | A2280G|(ORF1ab_polyprotein:A2015G(K672R))|(ORF1a_polyprotein:A2015G(K672R)) | 5 | 0.000 | 1 | 0.000 | 2907 | 0.086 | 3 | 0.000 | 4 | 0.086 | 0.0 | 0.086 | |||
| 2318 | T2318A|(ORF1ab_polyprotein:T2053A(F685I))|(ORF1a_polyprotein:T2053A(F685I)) | 4 | 0.000 | 1 | 0.000 | 2922 | 0.200 | 3 | 0.000 | 4 | 0.2 | 0.0 | 0.2 | ||||
| 2334 | C2334T|(ORF1ab_polyprotein:C2069T(A690V))|(ORF1a_polyprotein:C2069T(A690V)) | 1 | 0.000 | 2617 | 0.177 | 2 | 0.177 | 0.0 | 0.177 | ||||||||
| linked | 2611 | A2611G|(ORF1ab_polyprotein:A2346G(P782P))|(ORF1a_polyprotein:A2346G(P782P)) | 1 | 0.000 | 111 | 0.007 | 2 | 0.007 | 0.0 | 0.007 | |||||||
| 2692 | A2692-2692del|(ORF1ab_polyprotein:2427-2427del(809fs))|(ORF1a_polyprotein:2427-2427del(809fs)) | 95 | 0.103 | 1 | 0.103 | 0 | 0.103 | ||||||||||
| 2695 | C2695T|(ORF1ab_polyprotein:C2430T(N810N))|(ORF1a_polyprotein:C2430T(N810N)) | 95 | 0.103 | 1 | 0.103 | 0 | 0.103 | ||||||||||
| 2698 | T2698C|(ORF1ab_polyprotein:T2433C(N811N))|(ORF1a_polyprotein:T2433C(N811N)) | 105 | 0.114 | 1 | 0.114 | 0 | 0.114 | ||||||||||
| 2786 | A2786G|(ORF1ab_polyprotein:A2521G(I841V))|(ORF1a_polyprotein:A2521G(I841V)) | 108 | 0.117 | 1 | 0.117 | 0 | 0.117 | ||||||||||
| linked | 2790 | C2790T|(ORF1ab_polyprotein:C2525T(T842I))|(ORF1a_polyprotein:C2525T(T842I)) | 2976 | 0.999 | 4204 | 0.998 | 722 | 0.993 | 811 | 0.881 | 708 | 0.994 | 5 | 0.881 | 3.984 | 4.865 | |
| linked | 2887 | T2887C|(ORF1ab_polyprotein:T2622C(V874V))|(ORF1a_polyprotein:T2622C(V874V)) | 93 | 0.013 | 1 | 0.000 | 2 | 0.013 | 0.0 | 0.013 | |||||||
| linked | 2915 | C2915G|(ORF1ab_polyprotein:C2650G(Q884E))|(ORF1a_polyprotein:C2650G(Q884E)) | 2127 | 0.306 | 1 | 0.000 | 1868 | 0.247 | 2 | 0.000 | 4 | 0.247 | 0.306 | 0.5529999999999999 | |||
| linkedubiq | 3037 | RATG13,Delta | C3037T|(ORF1ab_polyprotein:C2772T(F924F))|(ORF1a_polyprotein:C2772T(F924F)) | 4019 | 0.997 | 1506 | 0.995 | 6687 | 0.994 | 4282 | 0.997 | 4 | 0.994 | 2.989 | 3.9829999999999997 | ||
| 3070 | T3070C|(ORF1ab_polyprotein:T2805C(D935D))|(ORF1a_polyprotein:T2805C(D935D)) | 846 | 0.126 | 1 | 0.126 | 0 | 0.126 | ||||||||||
| 3152 | G3152-3152del|(ORF1ab_polyprotein:2887-2887del(963fs))|(ORF1a_polyprotein:2887-2887del(963fs)) | 888 | 0.132 | 1 | 0.132 | 0 | 0.132 | ||||||||||
| 3308 | G3308A|(ORF1ab_polyprotein:G3043A(E1015K))|(ORF1a_polyprotein:G3043A(E1015K)) | 55 | 0.335 | 1 | 0.335 | 0 | 0.335 | ||||||||||
| 3333 | TTG3333-3335del|(ORF1ab_polyprotein:ATTGAA3067-3072AAAdel(IE1023-1024Kdel))|(ORF1a_polyprotein:ATTGAA3067-3072AAAdel(IE1023-1024Kdel)) | 135 | 0.823 | 1 | 0.823 | 0 | 0.823 | ||||||||||
| 3548 | G3548-3548del|(ORF1ab_polyprotein:3283-3283del(1095fs))|(ORF1a_polyprotein:3283-3283del(1095fs)) | 2384 | 0.104 | 1 | 0.104 | 0 | 0.104 | ||||||||||
| linkedubiq | 3565 | T3565C|(ORF1ab_polyprotein:T3300C(G1100G))|(ORF1a_polyprotein:T3300C(G1100G)) | 11022 | 0.998 | 2916 | 0.992 | 8170 | 0.995 | 22635 | 0.991 | 15797 | 0.991 | 5 | 0.991 | 3.976 | 4.967 | |
| 3644 | G3644T|(ORF1ab_polyprotein:G3379T(D1127Y))|(ORF1a_polyprotein:G3379T(D1127Y)) | 1 | 0.000 | 1 | 0.000 | 2423 | 0.106 | 1 | 0.000 | 4 | 0.106 | 0.0 | 0.106 | ||||
| 3932 | G3932A|(ORF1ab_polyprotein:G3667A(E1223K))|(ORF1a_polyprotein:G3667A(E1223K)) | 1 | 0.000 | 3 | 0.000 | 2098 | 0.187 | 1 | 0.000 | 4 | 0.187 | 0.0 | 0.187 | ||||
| ubiq | 4184 | G4184A|(ORF1ab_polyprotein:G3919A(G1307S))|(ORF1a_polyprotein:G3919A(G1307S)) | 22575 | 0.998 | 20419 | 0.997 | 25043 | 0.982 | 47220 | 0.984 | 41964 | 0.998 | 5 | 0.984 | 3.975 | 4.959 | |
| 4586 | C4586T|(ORF1ab_polyprotein:C4321T(L1441L))|(ORF1a_polyprotein:C4321T(L1441L)) | 2 | 0.000 | 6050 | 0.247 | 2 | 0.247 | 0.0 | 0.247 | ||||||||
| 4597 | T4597C|(ORF1ab_polyprotein:T4332C(T1444T))|(ORF1a_polyprotein:T4332C(T1444T)) | 3 | 0.000 | 14 | 0.000 | 2 | 0.000 | 7556 | 0.308 | 1 | 0.000 | 5 | 0.308 | 0.0 | 0.308 | ||
| 5151 | RATG13 | T5151C|(ORF1ab_polyprotein:T4886C(V1629A))|(ORF1a_polyprotein:T4886C(V1629A)) | 1 | 0.000 | 994 | 0.148 | 2 | 0.148 | 0.0 | 0.148 | |||||||
| linked | 5581 | C5581A|(ORF1ab_polyprotein:C5316A(G1772G))|(ORF1a_polyprotein:C5316A(G1772G)) | 2 | 0.000 | 2 | 0.000 | 3668 | 0.112 | 5474 | 0.167 | 11 | 0.000 | 5 | 0.167 | 0.112 | 0.279 | |
| 5648 | RATG13 | A5648C|(ORF1ab_polyprotein:A5383C(K1795Q))|(ORF1a_polyprotein:A5383C(K1795Q)) | 1 | 0.000 | 1 | 0.000 | 5481 | 0.168 | 3 | 0.168 | 0.0 | 0.168 | |||||
| 5834 | T5834C|(ORF1ab_polyprotein:T5569C(S1857P))|(ORF1a_polyprotein:T5569C(S1857P)) | 3 | 0.000 | 1 | 0.000 | 321 | 0.116 | 2 | 0.000 | 4 | 0.116 | 0.0 | 0.116 | ||||
| 5886 | RATG13 | C5886T|(ORF1ab_polyprotein:C5621T(T1874I))|(ORF1a_polyprotein:C5621T(T1874I)) | 1 | 0.000 | 1194 | 0.432 | 2 | 0.432 | 0.0 | 0.432 | |||||||
| 6040 | C6040T|(ORF1ab_polyprotein:C5775T(F1925F))|(ORF1a_polyprotein:C5775T(F1925F)) | 3 | 0.000 | 1 | 0.000 | 4 | 0.000 | 9293 | 0.168 | 5 | 0.000 | 5 | 0.168 | 0.0 | 0.168 | ||
| 6140 | TT6140-6141del|(ORF1ab_polyprotein:5875-5876del(1959fs))|(ORF1a_polyprotein:5875-5876del(1959fs)) | 11843 | 0.226 | 1 | 0.226 | 0 | 0.226 | ||||||||||
| linked | 6183 | A6183G|(ORF1ab_polyprotein:A5918G(K1973R))|(ORF1a_polyprotein:A5918G(K1973R)) | 45646 | 0.999 | 29258 | 0.994 | 55825 | 0.990 | 42690 | 0.817 | 56344 | 0.998 | 5 | 0.817 | 3.981 | 4.798 | |
| linked | 6286 | RATG13 | C6286T|(ORF1ab_polyprotein:C6021T(T2007T))|(ORF1a_polyprotein:C6021T(T2007T)) | 2 | 0.000 | 4100 | 0.051 | 3 | 0.000 | 3 | 0.051 | 0.0 | 0.051 | ||||
| 6380 | C6380-6380del|(ORF1ab_polyprotein:6115-6115del(2039fs))|(ORF1a_polyprotein:6115-6115del(2039fs)) | 4132 | 0.134 | 1 | 0.134 | 0 | 0.134 | ||||||||||
| 6660 | G6660T|(ORF1ab_polyprotein:G6395T(S2132I))|(ORF1a_polyprotein:G6395T(S2132I)) | 1 | 0.000 | 739 | 0.157 | 1 | 0.000 | 3 | 0.157 | 0.0 | 0.157 | ||||||
| 6854 | A6854G|(ORF1ab_polyprotein:A6589G(T2197A))|(ORF1a_polyprotein:A6589G(T2197A)) | 1 | 0.000 | 5 | 0.000 | 9841 | 0.232 | 3 | 0.000 | 4 | 0.232 | 0.0 | 0.232 | ||||
| 6968 | C6968T|(ORF1ab_polyprotein:C6703T(L2235L))|(ORF1a_polyprotein:C6703T(L2235L)) | 3 | 0.000 | 2 | 0.000 | 4494 | 0.119 | 1 | 0.000 | 4 | 0.119 | 0.0 | 0.119 | ||||
| 7124 | C7124T|(ORF1ab_polyprotein:C6859T(P2287S))|(ORF1a_polyprotein:C6859T(P2287S)) | 9625 | 0.255 | 1 | 0.000 | 2 | 0.255 | 0.0 | 0.255 | ||||||||
| linked | 7199 | T7199C|(ORF1ab_polyprotein:T6934C(S2312P))|(ORF1a_polyprotein:T6934C(S2312P)) | 1 | 0.000 | 16 | 0.000 | 4 | 0.000 | 450 | 0.011 | 8 | 0.000 | 5 | 0.011 | 0.0 | 0.011 | |
| 7289 | G7289-7289del|(ORF1ab_polyprotein:7024-7024del(2342fs))|(ORF1a_polyprotein:7024-7024del(2342fs)) | 656 | 0.354 | 1 | 0.354 | 0 | 0.354 | ||||||||||
| 7318 | C7318T|(ORF1ab_polyprotein:C7053T(F2351F))|(ORF1a_polyprotein:C7053T(F2351F)) | 2 | 0.003 | 365 | 0.197 | 1 | 0.000 | 3 | 0.197 | 0.003 | 0.2 | ||||||
| 7328 | G7328T|(ORF1ab_polyprotein:G7063T(A2355S))|(ORF1a_polyprotein:G7063T(A2355S)) | 3 | 0.005 | 447 | 0.241 | 1 | 0.000 | 3 | 0.241 | 0.005 | 0.246 | ||||||
| 7452 | G7452T|(ORF1ab_polyprotein:G7187T(S2396I))|(ORF1a_polyprotein:G7187T(S2396I)) | 4 | 0.002 | 445 | 0.242 | 3 | 0.000 | 3 | 0.242 | 0.002 | 0.244 | ||||||
| 7937 | T7937G|(ORF1ab_polyprotein:T7672G(S2558A))|(ORF1a_polyprotein:T7672G(S2558A)) | 1 | 0.000 | 1 | 0.000 | 2 | 0.000 | 3778 | 0.098 | 4 | 0.098 | 0.0 | 0.098 | ||||
| ubiq | 8293 | C8293T|(ORF1ab_polyprotein:C8028T(T2676T))|(ORF1a_polyprotein:C8028T(T2676T)) | 44531 | 0.995 | 76858 | 0.998 | 22845 | 0.996 | 70735 | 0.996 | 92597 | 0.999 | 5 | 0.996 | 3.988 | 4.984 | |
| ubiq | 8393 | G8393A|(ORF1ab_polyprotein:G8128A(A2710T))|(ORF1a_polyprotein:G8128A(A2710T)) | 44031 | 0.997 | 76583 | 0.998 | 22365 | 0.982 | 69185 | 0.981 | 92219 | 0.997 | 5 | 0.981 | 3.974 | 4.955 | |
| 8582 | T8582C|(ORF1ab_polyprotein:T8317C(L2773L))|(ORF1a_polyprotein:T8317C(L2773L)) | 674 | 0.152 | 1 | 0.000 | 2 | 0.152 | 0.0 | 0.152 | ||||||||
| 8986 | C8986T|(ORF1ab_polyprotein:C8721T(D2907D))|(ORF1a_polyprotein:C8721T(D2907D)) | 2551 | 0.200 | 1 | 0.2 | 0 | 0.2 | ||||||||||
| 8990 | G8990T|(ORF1ab_polyprotein:G8725T(A2909S))|(ORF1a_polyprotein:G8725T(A2909S)) | 13 | 0.001 | 1 | 0.000 | 2563 | 0.201 | 9 | 0.000 | 4 | 0.201 | 0.001 | 0.202 | ||||
| 9053 | G9053T|(ORF1ab_polyprotein:G8788T(V2930L))|(ORF1a_polyprotein:G8788T(V2930L)) | 1 | 0.000 | 2558 | 0.135 | 5 | 0.000 | 3 | 0.135 | 0.0 | 0.135 | ||||||
| 9143 | T9143-9143del|(ORF1ab_polyprotein:8878-8878del(2960fs))|(ORF1a_polyprotein:8878-8878del(2960fs)) | 760 | 0.119 | 1 | 0.119 | 0 | 0.119 | ||||||||||
| 9263 | AC9263-9264del|(ORF1ab_polyprotein:8998-8999del(3000fs))|(ORF1a_polyprotein:8998-8999del(3000fs)) | 753 | 0.117 | 1 | 0.117 | 0 | 0.117 | ||||||||||
| linkedubiq | 9344 | C9344T|(ORF1ab_polyprotein:C9079T(L3027F))|(ORF1a_polyprotein:C9079T(L3027F)) | 19842 | 0.999 | 12300 | 0.999 | 14112 | 0.999 | 14824 | 0.971 | 27744 | 0.999 | 5 | 0.971 | 3.996 | 4.967 | |
| ubiq | 9424 | A9424G|(ORF1ab_polyprotein:A9159G(V3053V))|(ORF1a_polyprotein:A9159G(V3053V)) | 7523 | 0.999 | 9213 | 0.998 | 9912 | 0.997 | 8519 | 0.951 | 20441 | 0.999 | 5 | 0.951 | 3.993 | 4.944 | |
| ubiq | 9534 | C9534T|(ORF1ab_polyprotein:C9269T(T3090I))|(ORF1a_polyprotein:C9269T(T3090I)) | 7517 | 0.999 | 9209 | 0.998 | 9914 | 0.997 | 8518 | 0.951 | 20444 | 0.998 | 5 | 0.951 | 3.992 | 4.943 | |
| ubiq | 10029 | C10029T|(ORF1ab_polyprotein:C9764T(T3255I))|(ORF1a_polyprotein:C9764T(T3255I)) | 985 | 0.998 | 1317 | 0.989 | 1532 | 0.997 | 6247 | 0.995 | 4084 | 0.991 | 5 | 0.995 | 3.975 | 4.97 | |
| 10421 | T10421G|(ORF1ab_polyprotein:T10156G(S3386A))|(ORF1a_polyprotein:T10156G(S3386A)) | 8143 | 0.152 | 1 | 0.000 | 2 | 0.152 | 0.0 | 0.152 | ||||||||
| 10642 | G10642T|(ORF1ab_polyprotein:G10377T(T3459T))|(ORF1a_polyprotein:G10377T(T3459T)) | 5 | 0.000 | 8 | 0.000 | 2282 | 0.145 | 4 | 0.000 | 4 | 0.145 | 0.0 | 0.145 | ||||
| 10722 | T10722C|(ORF1ab_polyprotein:T10457C(F3486S))|(ORF1a_polyprotein:T10457C(F3486S)) | 1 | 0.000 | 2290 | 0.146 | 2 | 0.146 | 0.0 | 0.146 | ||||||||
| ubiq | 11042 | G11042T|(ORF1ab_polyprotein:G10777T(V3593F))|(ORF1a_polyprotein:G10777T(V3593F)) | 10492 | 0.998 | 13034 | 0.999 | 2990 | 0.998 | 35121 | 0.998 | 26427 | 0.999 | 5 | 0.998 | 3.9939999999999998 | 4.992 | |
| 11514 | C11514T|(ORF1ab_polyprotein:C11249T(T3750I))|(ORF1a_polyprotein:C11249T(T3750I)) | 2 | 0.000 | 2282 | 0.097 | 2 | 0.097 | 0.0 | 0.097 | ||||||||
| 11773 | T11773A|(ORF1ab_polyprotein:T11508A(D3836E))|(ORF1a_polyprotein:T11508A(D3836E)) | 1 | 0.001 | 610 | 0.174 | 2 | 0.174 | 0.001 | 0.175 | ||||||||
| 12605 | A12605G|(ORF1ab_polyprotein:A12340G(I4114V))|(ORF1a_polyprotein:A12340G(I4114V)) | 454 | 0.315 | 1 | 0.315 | 0 | 0.315 | ||||||||||
| 12686 | AAT12686-12688del|(ORF1ab_polyprotein:12421-12423del(N4141del))|(ORF1a_polyprotein:12421-12423del(N4141del)) | 207 | 0.144 | 1 | 0.144 | 0 | 0.144 | ||||||||||
| linkedubiq | 12789 | C12789T|(ORF1ab_polyprotein:C12524T(T4175I))|(ORF1a_polyprotein:C12524T(T4175I)) | 22311 | 0.999 | 1891 | 0.997 | 13219 | 0.999 | 11477 | 0.999 | 14482 | 0.998 | 5 | 0.999 | 3.993 | 4.992 | |
| linked | 12791 | A12791C|(ORF1ab_polyprotein:A12526C(K4176Q))|(ORF1a_polyprotein:A12526C(K4176Q)) | 6 | 0.000 | 2 | 0.001 | 1 | 0.000 | 670 | 0.058 | 1 | 0.000 | 5 | 0.058 | 0.001 | 0.059000000000000004 | |
| ubiq | 12880 | C12880T|(ORF1ab_polyprotein:C12615T(I4205I))|(ORF1a_polyprotein:C12615T(I4205I)) | 21537 | 0.999 | 1260 | 0.998 | 12561 | 0.998 | 9813 | 0.975 | 13856 | 0.998 | 5 | 0.975 | 3.993 | 4.968 | |
| 13540 | G13540T|(ORF1ab_polyprotein:G13276T(A4426S)) | 13 | 0.000 | 2 | 0.000 | 11 | 0.000 | 10484 | 0.161 | 4 | 0.000 | 5 | 0.161 | 0.0 | 0.161 | ||
| 13608 | C13608-13608del|(ORF1ab_polyprotein:13344-13344del(4448fs)) | 2 | 0.000 | 1 | 0.000 | 3 | 0.000 | 10067 | 0.154 | 3 | 0.000 | 5 | 0.154 | 0.0 | 0.154 | ||
| ubiq | 14408 | Delta | C14408T|(ORF1ab_polyprotein:C14144T(P4715L)) | 41650 | 0.999 | 30732 | 0.999 | 55906 | 0.994 | 45603 | 0.993 | 44730 | 0.998 | 5 | 0.993 | 3.99 | 4.9830000000000005 |
| 14856 | A14856G|(ORF1ab_polyprotein:A14592G(V4864V)) | 1003 | 0.160 | 1 | 0.16 | 0 | 0.16 | ||||||||||
| 15006 | G15006T|(ORF1ab_polyprotein:G14742T(E4914D)) | 1 | 0.000 | 653 | 0.104 | 1 | 0.000 | 3 | 0.104 | 0.0 | 0.104 | ||||||
| 15165 | A15165G|(ORF1ab_polyprotein:A14901G(L4967L)) | 4209 | 0.148 | 1 | 0.000 | 2 | 0.148 | 0.0 | 0.148 | ||||||||
| 15451 | G15451A|(ORF1ab_polyprotein:G15187A(G5063S)) | 4587 | 0.174 | 1 | 0.174 | 0 | 0.174 | ||||||||||
| linked | 15714 | RATG13 | C15714T|(ORF1ab_polyprotein:C15450T(L5150L)) | 15079 | 0.998 | 15049 | 1.000 | 20335 | 0.995 | 30636 | 0.851 | 28674 | 0.982 | 5 | 0.851 | 3.975 | 4.8260000000000005 |
| linked | 15756 | T15756A|(ORF1ab_polyprotein:T15492A(S5164S)) | 3161 | 0.999 | 4051 | 0.999 | 7502 | 0.999 | 9301 | 0.932 | 11397 | 0.999 | 5 | 0.932 | 3.996 | 4.928 | |
| 15861 | A15861G|(ORF1ab_polyprotein:A15597G(K5199K)) | 2 | 0.000 | 993 | 0.099 | 2 | 0.099 | 0.0 | 0.099 | ||||||||
| 15881 | C15881T|(ORF1ab_polyprotein:C15617T(S5206F)) | 1377 | 0.137 | 1 | 0.137 | 0 | 0.137 | ||||||||||
| 16726 | C16726T|(ORF1ab_polyprotein:C16462T(H5488Y)) | 4 | 0.000 | 7577 | 0.294 | 1 | 0.000 | 3 | 0.294 | 0.0 | 0.294 | ||||||
| 16789 | TA16789-16790del|(ORF1ab_polyprotein:16525-16526del(5509fs)) | 3454 | 0.133 | 1 | 0.133 | 0 | 0.133 | ||||||||||
| 17032 | G17032A|(ORF1ab_polyprotein:G16768A(V5590I)) | 1 | 0.000 | 1 | 0.000 | 4903 | 0.111 | 3 | 0.111 | 0.0 | 0.111 | ||||||
| 17050 | G17050A|(ORF1ab_polyprotein:G16786A(V5596I)) | 2 | 0.000 | 3064 | 0.160 | 2 | 0.16 | 0.0 | 0.16 | ||||||||
| 17125 | C17125A|(ORF1ab_polyprotein:CTC16861-16863AAC(L5621N)) | 3082 | 0.160 | 1 | 0.16 | 0 | 0.16 | ||||||||||
| 17126 | T17126A|(ORF1ab_polyprotein:CTC16861-16863AAC(L5621N)) | 3082 | 0.160 | 1 | 0.16 | 0 | 0.16 | ||||||||||
| 17373 | RATG13 | C17373T|(ORF1ab_polyprotein:C17109T(A5703A)) | 1 | 0.000 | 3 | 0.000 | 11401 | 0.346 | 6 | 0.000 | 4 | 0.346 | 0.0 | 0.346 | |||
| 17497 | T17497C|(ORF1ab_polyprotein:T17233C(Y5745H)) | 3 | 0.000 | 3 | 0.000 | 3 | 0.000 | 11379 | 0.129 | 2 | 0.000 | 5 | 0.129 | 0.0 | 0.129 | ||
| 17706 | G17706C|(ORF1ab_polyprotein:G17442C(R5814S)) | 13 | 0.000 | 14 | 0.000 | 14 | 0.000 | 5804 | 0.102 | 8 | 0.000 | 5 | 0.102 | 0.0 | 0.102 | ||
| 17956 | T17956C|(ORF1ab_polyprotein:T17692C(C5898R)) | 1 | 0.000 | 4 | 0.000 | 1757 | 0.101 | 3 | 0.101 | 0.0 | 0.101 | ||||||
| linked | 18163 | A18163G|(ORF1ab_polyprotein:A17899G(I5967V)) | 9406 | 0.949 | 10381 | 0.999 | 20502 | 0.997 | 12425 | 0.534 | 7528 | 0.998 | 5 | 0.534 | 3.943 | 4.477 | |
| 18287 | T18287C|(ORF1ab_polyprotein:T18023C(V6008A)) | 1 | 0.000 | 641 | 0.108 | 1 | 0.000 | 3 | 0.108 | 0.0 | 0.108 | ||||||
| 18411 | T18411C|(ORF1ab_polyprotein:T18147C(Y6049Y)) | 1 | 0.001 | 1 | 0.000 | 966 | 0.163 | 1 | 0.000 | 4 | 0.163 | 0.001 | 0.164 | ||||
| 18487 | A18487T|(ORF1ab_polyprotein:A18223T(I6075L)) | 2 | 0.000 | 4 | 0.000 | 6 | 0.000 | 21314 | 0.268 | 4 | 0.000 | 5 | 0.268 | 0.0 | 0.268 | ||
| linked | 18492 | A18492G|(ORF1ab_polyprotein:A18228G(P6076P)) | 46782 | 0.999 | 49338 | 0.999 | 79357 | 0.999 | 57629 | 0.725 | 80198 | 0.999 | 5 | 0.725 | 3.996 | 4.721 | |
| 18583 | G18583T|(ORF1ab_polyprotein:G18319T(V6107L)) | 10 | 0.000 | 6 | 0.000 | 7 | 0.000 | 7661 | 0.104 | 8 | 0.000 | 5 | 0.104 | 0.0 | 0.104 | ||
| 18688 | T18688-18688del|(ORF1ab_polyprotein:18424-18424del(6142fs)) | 17 | 0.000 | 15 | 0.000 | 34 | 0.000 | 7739 | 0.105 | 25 | 0.000 | 5 | 0.105 | 0.0 | 0.105 | ||
| 18729 | TA18729-18730del|(ORF1ab_polyprotein:18465-18466del(6155fs)) | 7977 | 0.108 | 1 | 0.108 | 0 | 0.108 | ||||||||||
| linkedubiq | 18894 | C18894T|(ORF1ab_polyprotein:C18630T(C6210C)) | 26669 | 0.999 | 50691 | 0.999 | 5493 | 0.983 | 9369 | 0.984 | 2262 | 0.998 | 5 | 0.984 | 3.979 | 4.963 | |
| 19044 | T19044A|(ORF1ab_polyprotein:T18780A(P6260P)) | 2 | 0.000 | 2 | 0.000 | 1 | 0.000 | 1591 | 0.167 | 4 | 0.167 | 0.0 | 0.167 | ||||
| 19071 | TGA19071-19073del|(ORF1ab_polyprotein:GCTGAT18805-18810GCTdel(AD6269-6270Adel)) | 1521 | 0.160 | 1 | 0.16 | 0 | 0.16 | ||||||||||
| 19199 | G19199T|(ORF1ab_polyprotein:G18935T(C6312F)) | 1 | 0.000 | 1555 | 0.121 | 4 | 0.000 | 3 | 0.121 | 0.0 | 0.121 | ||||||
| 19220 | C19220T|(ORF1ab_polyprotein:C18956T(A6319V)) | 3523 | 0.275 | 1 | 0.275 | 0 | 0.275 | ||||||||||
| 19265 | T19265C|(ORF1ab_polyprotein:T19001C(L6334P)) | 3 | 0.001 | 1 | 0.000 | 1549 | 0.121 | 1 | 0.000 | 4 | 0.121 | 0.001 | 0.122 | ||||
| 19289 | G19289T|(ORF1ab_polyprotein:G19025T(G6342V)) | 1 | 0.000 | 2552 | 0.199 | 2 | 0.000 | 3 | 0.199 | 0.0 | 0.199 | ||||||
| 19374 | C19374T|(ORF1ab_polyprotein:C19110T(F6370F)) | 1 | 0.000 | 1297 | 0.101 | 2 | 0.101 | 0.0 | 0.101 | ||||||||
| linked | 19456 | T19456C|(ORF1ab_polyprotein:T19192C(C6398R)) | 11 | 0.000 | 8 | 0.000 | 8 | 0.000 | 2522 | 0.021 | 8 | 0.000 | 5 | 0.021 | 0.0 | 0.021 | |
| 19716 | C19716T|(ORF1ab_polyprotein:C19452T(Y6484Y)) | 1 | 0.000 | 1 | 0.000 | 2 | 0.000 | 14695 | 0.137 | 2 | 0.000 | 5 | 0.137 | 0.0 | 0.137 | ||
| 19839 | T19839C|(ORF1ab_polyprotein:T19575C(N6525N)) | 1 | 0.000 | 1998 | 0.119 | 1 | 0.000 | 3 | 0.119 | 0.0 | 0.119 | ||||||
| linked | 19955 | C19955T|(ORF1ab_polyprotein:C19691T(T6564I)) | 17749 | 0.998 | 8428 | 0.999 | 6412 | 0.998 | 10462 | 0.620 | 30482 | 0.998 | 5 | 0.62 | 3.993 | 4.6129999999999995 | |
| 19963 | A19963G|(ORF1ab_polyprotein:A19699G(I6567V)) | 1 | 0.000 | 1 | 0.000 | 6353 | 0.376 | 1 | 0.000 | 4 | 0.376 | 0.0 | 0.376 | ||||
| 20053 | G20053T|(ORF1ab_polyprotein:GAA19789-19791TAG(E6597*)) | 3 | 0.000 | 8 | 0.000 | 2190 | 0.118 | 5 | 0.000 | 4 | 0.118 | 0.0 | 0.118 | ||||
| 20055 | A20055G|(ORF1ab_polyprotein:GAA19789-19791TAG(E6597*)) | 3 | 0.000 | 8 | 0.000 | 2190 | 0.118 | 5 | 0.000 | 4 | 0.118 | 0.0 | 0.118 | ||||
| 20404 | C20404T|(ORF1ab_polyprotein:C20140T(P6714S)) | 1 | 0.000 | 1411 | 0.548 | 2 | 0.548 | 0.0 | 0.548 | ||||||||
| 20719 | RATG13 | C20719T|(ORF1ab_polyprotein:C20455T(L6819L)) | 10210 | 0.159 | 1 | 0.159 | 0 | 0.159 | |||||||||
| 21137 | A21137G|(ORF1ab_polyprotein:A20873G(K6958R)) | 2 | 0.000 | 7 | 0.000 | 5 | 0.000 | 4904 | 0.124 | 8 | 0.000 | 5 | 0.124 | 0.0 | 0.124 | ||
| 21493 | AG21493-21494del|(ORF1ab_polyprotein:21229-21230del(7077fs)) | 1598 | 0.823 | 1 | 0.823 | 0 | 0.823 | ||||||||||
| linkedubiq | 21609 | 21609-insertTCATGCCGCTGT|(surface_glycoprotein:GTT46-48GTCATGCCGCTGTTTinsert(V16VMPLF)) | 4099 | 0.990 | 1912 | 0.951 | 351 | 0.978 | 3750 | 0.974 | 51 | 0.637 | 5 | 0.974 | 3.556 | 4.53 | |
| linkedubiq | 21618 | C21618T|(surface_glycoprotein:C56T(T19I)) | 4126 | 0.999 | 2008 | 1.000 | 357 | 1.000 | 3794 | 0.989 | 80 | 1.000 | 5 | 0.989 | 3.999 | 4.988 | |
| linkedubiq | 21622 | RATG13 | C21622T|(surface_glycoprotein:C60T(T20T)) | 4126 | 0.999 | 2008 | 1.000 | 357 | 1.000 | 3800 | 0.990 | 80 | 1.000 | 5 | 0.99 | 3.999 | 4.989 |
| linkedubiq | 21624 | G21624C|(surface_glycoprotein:G62C(R21T)) | 4124 | 0.999 | 2007 | 0.999 | 357 | 1.000 | 3800 | 0.990 | 79 | 0.988 | 5 | 0.99 | 3.9859999999999998 | 4.976 | |
| linkedubiq | 21633 | TACCCCCTG21633-21641del|(surface_glycoprotein:TTACCCCCTGCA70-81TCAdel(LPPA24-27Sdel)) | 4115 | 0.997 | 2007 | 0.999 | 357 | 1.000 | 3802 | 0.984 | 80 | 1.000 | 5 | 0.984 | 3.996 | 4.98 | |
| linked | 21652 | TTC21652-21654del|(surface_glycoprotein:AATTCT88-93AATdel(NS30-31Ndel)) | 3619 | 0.877 | 1990 | 0.990 | 357 | 1.000 | 3120 | 0.806 | 80 | 1.000 | 5 | 0.806 | 3.867 | 4.673 | |
| linked | 21711 | RATG13 | C21711T|(surface_glycoprotein:C149T(S50L)) | 75 | 0.018 | 599 | 0.298 | 2 | 0.006 | 1920 | 0.488 | 57 | 0.704 | 5 | 0.488 | 1.026 | 1.514 |
| linkedubiq | 21765 | TACATG21765-21770del|(surface_glycoprotein:ATACATGTC202-210ATCdel(IHV68-70Idel)) | 75 | 1.000 | 599 | 0.998 | 2 | 1.000 | 2007 | 0.991 | 56 | 0.982 | 5 | 0.991 | 3.98 | 4.971 | |
| 21841 | T21841C|(surface_glycoprotein:T279C(A93A)) | 1482 | 0.733 | 1 | 0.733 | 0 | 0.733 | ||||||||||
| linked | 21941 | G21941T|(surface_glycoprotein:G379T(V127F)) | 20507 | 0.990 | 16351 | 0.964 | 36231 | 0.998 | 29660 | 0.938 | 27698 | 0.996 | 5 | 0.938 | 3.948 | 4.886 | |
| linkedubiq | 21987 | G21987A|(surface_glycoprotein:G425A(G142D)) | 20515 | 0.998 | 16363 | 0.998 | 36331 | 0.999 | 29687 | 0.998 | 27869 | 0.996 | 5 | 0.998 | 3.991 | 4.989 | |
| linkedubiq | 21991 | TTA21991-21993del|(surface_glycoprotein:GTTTAT427-432GTTdel(VY143-144Vdel)) | 20499 | 0.997 | 16307 | 0.994 | 36287 | 0.997 | 29665 | 0.997 | 27845 | 0.995 | 5 | 0.997 | 3.983 | 4.98 | |
| linkedubiq | 22031 | T22031-22031del|(surface_glycoprotein:TTCAGA469-474TCAGGA(FR157-158SG)) | 20497 | 0.997 | 16351 | 0.997 | 36272 | 0.997 | 29643 | 0.996 | 27810 | 0.993 | 5 | 0.996 | 3.984 | 4.98 | |
| linkedubiq | 22035 | 22035-insertG|(surface_glycoprotein:TTCAGA469-474TCAGGA(FR157-158SG)) | 20497 | 0.997 | 16351 | 0.997 | 36272 | 0.997 | 29643 | 0.996 | 27810 | 0.993 | 5 | 0.996 | 3.984 | 4.98 | |
| 22113 | G22113T|(surface_glycoprotein:G551T(G184V)) | 5 | 0.000 | 4 | 0.000 | 3 | 0.000 | 5209 | 0.175 | 23 | 0.001 | 5 | 0.175 | 0.001 | 0.176 | ||
| linked | 22194 | ATT22194-22196del|(surface_glycoprotein:AATTTA631-636ATAdel(NL211-212Idel)) | 24691 | 0.998 | 55369 | 0.993 | 41150 | 0.997 | 49361 | 0.883 | 53078 | 0.997 | 5 | 0.883 | 3.985 | 4.868 | |
| linked | 22200 | T22200G|(surface_glycoprotein:T638G(V213G)) | 24693 | 0.998 | 55678 | 0.999 | 41200 | 0.998 | 50848 | 0.909 | 53160 | 0.999 | 5 | 0.909 | 3.9939999999999998 | 4.903 | |
| linked | 22206 | A22206G|(surface_glycoprotein:A644G(D215G)) | 1 | 0.000 | 3 | 0.000 | 3 | 0.000 | 4854 | 0.086 | 2 | 0.000 | 5 | 0.086 | 0.0 | 0.086 | |
| linked | 22208 | C22208T|(surface_glycoprotein:C646T(L216F)) | 24779 | 0.999 | 55734 | 0.999 | 41253 | 0.998 | 51244 | 0.910 | 53335 | 0.999 | 5 | 0.91 | 3.995 | 4.905 | |
| linked | 22254 | T22254C|(surface_glycoprotein:T692C(I231T)) | 4 | 0.000 | 2 | 0.000 | 5048 | 0.089 | 8 | 0.000 | 4 | 0.089 | 0.0 | 0.089 | |||
| 22272 | G22272T|(surface_glycoprotein:G710T(R237M)) | 3 | 0.001 | 9 | 0.000 | 2 | 0.000 | 5067 | 0.187 | 12 | 0.000 | 5 | 0.187 | 0.001 | 0.188 | ||
| 22289 | GCTTTA22289-22294del|(surface_glycoprotein:727-732del(AL243-244del)) | 5052 | 0.186 | 1 | 0.186 | 0 | 0.186 | ||||||||||
| 22299 | G22299T|(surface_glycoprotein:G737T(R246I)) | 1 | 0.000 | 7 | 0.000 | 1 | 0.000 | 5056 | 0.186 | 5 | 0.000 | 5 | 0.186 | 0.0 | 0.186 | ||
| 22304 | T22304C|(surface_glycoprotein:T742C(Y248H)) | 2 | 0.000 | 5062 | 0.187 | 2 | 0.000 | 3 | 0.187 | 0.0 | 0.187 | ||||||
| 22311 | C22311A|(surface_glycoprotein:C749A(T250N)) | 4 | 0.000 | 2 | 0.000 | 5064 | 0.187 | 1 | 0.000 | 4 | 0.187 | 0.0 | 0.187 | ||||
| linkedubiq | 22556 | A22556G|(surface_glycoprotein:A994G(I332V)) | 5207 | 0.997 | 1143 | 0.998 | 9484 | 0.998 | 3895 | 0.998 | 8612 | 0.997 | 5 | 0.998 | 3.99 | 4.988 | |
| linkedubiq | 22577 | G22577C|(surface_glycoprotein:GGT1015-1017CAT(G339H)) | 5220 | 0.997 | 1144 | 0.997 | 9507 | 0.997 | 3915 | 0.998 | 8627 | 0.997 | 5 | 0.998 | 3.988 | 4.986 | |
| linkedubiq | 22578 | G22578A|(surface_glycoprotein:GGT1015-1017CAT(G339H)) | 5220 | 0.997 | 1144 | 0.997 | 9507 | 0.997 | 3915 | 0.998 | 8627 | 0.997 | 5 | 0.998 | 3.988 | 4.986 | |
| linked | 22599 | RATG13 | G22599C|(surface_glycoprotein:G1037C(R346T)) | 4401 | 0.840 | 798 | 0.694 | 5743 | 0.601 | 2773 | 0.705 | 5995 | 0.691 | 5 | 0.705 | 2.8259999999999996 | 3.5309999999999997 |
| 22625 | A22625G|(surface_glycoprotein:A1063G(R355G)) | 404 | 0.103 | 1 | 0.103 | 0 | 0.103 | ||||||||||
| linkedubiq | 22629 | A22629C|(surface_glycoprotein:A1067C(K356T)) | 5222 | 0.998 | 1149 | 0.999 | 9511 | 0.998 | 3905 | 0.996 | 8642 | 0.998 | 5 | 0.996 | 3.993 | 4.989 | |
| linkedubiq | 22674 | C22674T|(surface_glycoprotein:C1112T(S371F)) | 5210 | 0.996 | 1150 | 1.000 | 9496 | 0.996 | 3895 | 0.994 | 8634 | 0.997 | 5 | 0.994 | 3.989 | 4.983 | |
| linked | 22679 | T22679C|(surface_glycoprotein:T1117C(S373P)) | 5218 | 0.998 | 1148 | 0.999 | 9488 | 0.996 | 3500 | 0.893 | 8632 | 0.997 | 5 | 0.893 | 3.99 | 4.883 | |
| 22680 | CA22680-22681del|(surface_glycoprotein:TCATTTTCC1117-1125TTTTTCdel(SFS373-375FFdel)) | 391 | 0.100 | 1 | 0.1 | 0 | 0.1 | ||||||||||
| 22686 | C22686-22686del|(surface_glycoprotein:TCATTTTCC1117-1125TTTTTCdel(SFS373-375FFdel)) | 391 | 0.100 | 1 | 0.1 | 0 | 0.1 | ||||||||||
| linked | 22686 | C22686T|(surface_glycoprotein:C1124T(S375F)) | 5212 | 0.997 | 1144 | 0.996 | 9497 | 0.997 | 3511 | 0.896 | 8633 | 0.997 | 5 | 0.896 | 3.987 | 4.883 | |
| linkedubiq | 22688 | A22688G|(surface_glycoprotein:A1126G(T376A)) | 5208 | 0.996 | 1146 | 0.997 | 9495 | 0.996 | 3900 | 0.995 | 8633 | 0.997 | 5 | 0.995 | 3.9859999999999998 | 4.981 | |
| linked | 22770 | G22770A|(surface_glycoprotein:G1208A(R403K)) | 5199 | 0.998 | 1142 | 0.280 | 9465 | 0.897 | 3820 | 0.106 | 8610 | 0.948 | 5 | 0.106 | 3.123 | 3.229 | |
| linked | 22775 | G22775A|(surface_glycoprotein:G1213A(D405N)) | 5202 | 0.999 | 4076 | 0.999 | 10535 | 0.999 | 4971 | 0.139 | 9064 | 0.999 | 5 | 0.139 | 3.996 | 4.135 | |
| 22776 | A22776G|(surface_glycoprotein:A1214G(D405G)) | 29888 | 0.833 | 1 | 0.833 | 0 | 0.833 | ||||||||||
| linked | 22786 | A22786C|(surface_glycoprotein:A1224C(R408S)) | 5193 | 0.998 | 4071 | 0.998 | 10524 | 0.997 | 4608 | 0.128 | 9047 | 0.997 | 5 | 0.128 | 3.99 | 4.118 | |
| 22786 | A22786T|(surface_glycoprotein:A1224T(R408S)) | 29772 | 0.830 | 1 | 0.83 | 0 | 0.83 | ||||||||||
| 22812 | A22812C|(surface_glycoprotein:A1250C(K417T)) | 29976 | 0.835 | 1 | 0.835 | 0 | 0.835 | ||||||||||
| linked | 22813 | G22813T|(surface_glycoprotein:G1251T(K417N)) | 5195 | 0.998 | 4019 | 0.985 | 10522 | 0.998 | 4930 | 0.137 | 9055 | 0.999 | 5 | 0.137 | 3.98 | 4.117 | |
| 22879 | C22879A|(surface_glycoprotein:C1317A(N439K)) | 30079 | 0.933 | 1 | 0.933 | 0 | 0.933 | ||||||||||
| 22896 | T22896C|(surface_glycoprotein:T1334C(V445A)) | 31007 | 0.962 | 1 | 0.962 | 0 | 0.962 | ||||||||||
| 22899 | G22899A|(surface_glycoprotein:G1337A(G446D)) | 31026 | 0.963 | 1 | 0.963 | 0 | 0.963 | ||||||||||
| 22907 | T22907C|(surface_glycoprotein:TAT1345-1347CGT(Y449R)) | 30068 | 0.933 | 1 | 0.933 | 0 | 0.933 | ||||||||||
| 22908 | A22908G|(surface_glycoprotein:TAT1345-1347CGT(Y449R)) | 30068 | 0.933 | 1 | 0.933 | 0 | 0.933 | ||||||||||
| 22917 | Delta | T22917G|(surface_glycoprotein:T1355G(L452R)) | 31010 | 0.962 | 1 | 0.962 | 0 | 0.962 | |||||||||
| 22920 | A22920T|(surface_glycoprotein:A1358T(Y453F)) | 31036 | 0.963 | 1 | 0.963 | 0 | 0.963 | ||||||||||
| linkedubiq | 22942 | T22942A|(surface_glycoprotein:T1380A(N460K)) | 2937 | 1.000 | 1065 | 0.999 | 32183 | 0.999 | 471 | 1.000 | 4 | 0.999 | 2.999 | 3.998 | |||
| 22967 | T22967C|(surface_glycoprotein:T1405C(S469P)) | 6812 | 0.211 | 1 | 0.211 | 0 | 0.211 | ||||||||||
| linkedubiq | 22992 | G22992A|(surface_glycoprotein:G1430A(S477N)) | 2935 | 0.999 | 1066 | 1.000 | 31195 | 0.968 | 471 | 1.000 | 4 | 0.968 | 2.999 | 3.967 | |||
| 23014 | A23014T|(surface_glycoprotein:A1452T(E484D)) | 30027 | 0.932 | 1 | 0.932 | 0 | 0.932 | ||||||||||
| 23016 | G23016A|(surface_glycoprotein:G1454A(G485D)) | 30037 | 0.933 | 1 | 0.933 | 0 | 0.933 | ||||||||||
| 23049 | 23049-insertT|(surface_glycoprotein:GGT1486-1488GTT(G496V)) | 7794 | 0.243 | 1 | 0.243 | 0 | 0.243 | ||||||||||
| 23049 | G23049T|(surface_glycoprotein:G1487T(G496V)) | 1 | 0.001 | 22127 | 0.690 | 2 | 0.69 | 0.001 | 0.691 | ||||||||
| 23049 | G23049T|(surface_glycoprotein:GGT1486-1488GTT(G496V)) | 7795 | 0.243 | 1 | 0.243 | 0 | 0.243 | ||||||||||
| 23054 | RATG13 | C23054T|(surface_glycoprotein:CAA1492-1494TAC(Q498Y)) | 30843 | 0.962 | 1 | 0.962 | 0 | 0.962 | |||||||||
| 23056 | RATG13 | A23056C|(surface_glycoprotein:CAA1492-1494TAC(Q498Y)) | 30843 | 0.962 | 1 | 0.962 | 0 | 0.962 | |||||||||
| 23060 | A23060T|(surface_glycoprotein:A1498T(T500S)) | 29892 | 0.932 | 1 | 0.932 | 0 | 0.932 | ||||||||||
| 23064 | A23064C|(surface_glycoprotein:A1502C(N501T)) | 29923 | 0.933 | 1 | 0.933 | 0 | 0.933 | ||||||||||
| 23073 | G23073A|(surface_glycoprotein:G1511A(G504D)) | 29918 | 0.933 | 1 | 0.933 | 0 | 0.933 | ||||||||||
| linkedubiq | 23075 | RATG13 | T23075C|(surface_glycoprotein:T1513C(Y505H)) | 2928 | 0.999 | 1062 | 0.999 | 32020 | 0.999 | 469 | 1.000 | 4 | 0.999 | 2.998 | 3.9970000000000003 | ||
| ubiq | 23222 | G23222A|(surface_glycoprotein:G1660A(E554K)) | 51830 | 0.999 | 42619 | 0.996 | 60169 | 0.997 | 78656 | 0.967 | 51832 | 0.998 | 5 | 0.967 | 3.99 | 4.957 | |
| ubiq | 23271 | C23271T|(surface_glycoprotein:C1709T(A570V)) | 64929 | 0.998 | 54618 | 0.998 | 67320 | 0.997 | 94937 | 0.971 | 65430 | 0.999 | 5 | 0.971 | 3.992 | 4.963 | |
| ubiq | 23403 | Delta | A23403G|(surface_glycoprotein:A1841G(D614G)) | 64771 | 0.998 | 54512 | 0.999 | 67225 | 0.999 | 97461 | 0.998 | 65262 | 0.998 | 5 | 0.998 | 3.9939999999999998 | 4.992 |
| ubiq | 23423 | C23423T|(surface_glycoprotein:C1861T(P621S)) | 64801 | 0.999 | 54519 | 0.999 | 67235 | 0.999 | 94933 | 0.973 | 65298 | 0.999 | 5 | 0.973 | 3.996 | 4.969 | |
| ubiq | 23525 | C23525T|(surface_glycoprotein:C1963T(H655Y)) | 13106 | 0.999 | 12087 | 0.998 | 7096 | 0.992 | 16624 | 0.994 | 13671 | 0.998 | 5 | 0.994 | 3.987 | 4.981 | |
| ubiq | 23599 | T23599G|(surface_glycoprotein:T2037G(N679K)) | 28800 | 0.999 | 47940 | 0.999 | 40745 | 0.999 | 56718 | 0.968 | 27730 | 0.998 | 5 | 0.968 | 3.995 | 4.963 | |
| ubiq | 23604 | Delta | C23604G|(surface_glycoprotein:C2042G(P681R)) | 28702 | 0.999 | 47847 | 0.999 | 40408 | 0.992 | 55933 | 0.957 | 27454 | 0.989 | 5 | 0.957 | 3.979 | 4.936 |
| 24002 | A24002C|(surface_glycoprotein:A2440C(K814Q)) | 2 | 0.000 | 15 | 0.001 | 4 | 0.000 | 3169 | 0.122 | 7 | 0.000 | 5 | 0.122 | 0.001 | 0.123 | ||
| 24026 | C24026G|(surface_glycoprotein:C2464G(L822V)) | 2 | 0.000 | 10 | 0.001 | 19 | 0.001 | 3714 | 0.143 | 11 | 0.000 | 5 | 0.143 | 0.002 | 0.145 | ||
| 24032 | A24032G|(surface_glycoprotein:A2470G(N824D)) | 2 | 0.000 | 1 | 0.000 | 14119 | 0.543 | 5 | 0.000 | 4 | 0.543 | 0.0 | 0.543 | ||||
| 24044 | C24044T|(surface_glycoprotein:C2482T(L828F)) | 14 | 0.001 | 1 | 0.000 | 14125 | 0.544 | 3 | 0.000 | 4 | 0.544 | 0.001 | 0.545 | ||||
| 24068 | C24068G|(surface_glycoprotein:C2506G(Q836E)) | 3 | 0.000 | 2 | 0.000 | 3182 | 0.122 | 1 | 0.000 | 4 | 0.122 | 0.0 | 0.122 | ||||
| 24122 | A24122G|(surface_glycoprotein:A2560G(K854E)) | 1 | 0.000 | 10718 | 0.415 | 1 | 0.000 | 3 | 0.415 | 0.0 | 0.415 | ||||||
| 24194 | T24194C|(surface_glycoprotein:T2632C(L878L)) | 2 | 0.000 | 14016 | 0.530 | 1 | 0.000 | 3 | 0.53 | 0.0 | 0.53 | ||||||
| ubiq | 24378 | C24378T|(surface_glycoprotein:C2816T(S939F)) | 348 | 1.000 | 306 | 0.994 | 377 | 1.000 | 781 | 0.996 | 460 | 1.000 | 5 | 0.996 | 3.9939999999999998 | 4.99 | |
| ubiq | 24424 | A24424T|(surface_glycoprotein:A2862T(Q954H)) | 348 | 1.000 | 308 | 1.000 | 377 | 1.000 | 783 | 0.999 | 460 | 1.000 | 5 | 0.999 | 4.0 | 4.999 | |
| 24486 | G24486A|(surface_glycoprotein:G2924A(S975N)) | 2 | 0.000 | 4 | 0.000 | 11470 | 0.272 | 3 | 0.272 | 0.0 | 0.272 | ||||||
| 24542 | G24542T|(surface_glycoprotein:G2980T(D994Y)) | 2 | 0.000 | 1 | 0.000 | 5 | 0.000 | 4537 | 0.107 | 3 | 0.000 | 5 | 0.107 | 0.0 | 0.107 | ||
| 24577 | G24577T|(surface_glycoprotein:G3015T(Q1005H)) | 9 | 0.001 | 1 | 0.000 | 6 | 0.000 | 4550 | 0.110 | 2 | 0.000 | 5 | 0.11 | 0.001 | 0.111 | ||
| linked | 24990 | C24990T|(surface_glycoprotein:C3428T(P1143L)) | 13688 | 0.997 | 25694 | 0.998 | 17604 | 0.997 | 19358 | 0.938 | 16088 | 0.997 | 5 | 0.938 | 3.989 | 4.927 | |
| linked | 25000 | RATG13 | C25000T|(surface_glycoprotein:C3438T(D1146D)) | 13679 | 0.997 | 25676 | 0.998 | 17604 | 0.997 | 19349 | 0.938 | 16082 | 0.996 | 5 | 0.938 | 3.988 | 4.926 |
| 25012 | G25012T|(surface_glycoprotein:G3450T(E1150D)) | 2 | 0.000 | 2 | 0.000 | 3 | 0.000 | 2030 | 0.098 | 1 | 0.000 | 5 | 0.098 | 0.0 | 0.098 | ||
| linked | 25094 | A25094G|(surface_glycoprotein:A3532G(N1178D)) | 4 | 0.000 | 1 | 0.000 | 3 | 0.000 | 2416 | 0.086 | 1 | 0.000 | 5 | 0.086 | 0.0 | 0.086 | |
| 25208 | A25208G|(surface_glycoprotein:A3646G(I1216V)) | 1 | 0.001 | 1371 | 0.163 | 2 | 0.163 | 0.001 | 0.164 | ||||||||
| 25510 | T25510C|(ORF3a_protein:T118C(S40P)) | 1 | 0.000 | 5 | 0.000 | 2 | 0.000 | 6229 | 0.107 | 5 | 0.000 | 5 | 0.107 | 0.0 | 0.107 | ||
| 25566 | C25566T|(ORF3a_protein:C174T(S58S)) | 2 | 0.000 | 3 | 0.000 | 1 | 0.000 | 6506 | 0.112 | 3 | 0.000 | 5 | 0.112 | 0.0 | 0.112 | ||
| linkedubiq | 25584 | C25584T|(ORF3a_protein:C192T(T64T)) | 19342 | 0.998 | 65441 | 0.999 | 19986 | 0.998 | 57372 | 0.985 | 43420 | 0.998 | 5 | 0.985 | 3.993 | 4.978 | |
| 25690 | G25690T|(ORF3a_protein:G298T(G100C)) | 1 | 0.000 | 7 | 0.000 | 6454 | 0.109 | 8 | 0.000 | 4 | 0.109 | 0.0 | 0.109 | ||||
| 25722 | T25722-25722del|(ORF3a_protein:330-330del(110fs)) | 3 | 0.000 | 4 | 0.000 | 1 | 0.000 | 6234 | 0.106 | 4 | 0.000 | 5 | 0.106 | 0.0 | 0.106 | ||
| 26483 | TAT26483-26485del | 1627 | 0.116 | 1 | 0.116 | 0 | 0.116 | ||||||||||
| 26503 | T26503C | 4 | 0.000 | 1 | 0.000 | 2018 | 0.144 | 2 | 0.000 | 4 | 0.144 | 0.0 | 0.144 | ||||
| linkedubiq | 26529 | G26529C|(membrane_glycoprotein:G7C(D3H)) | 15992 | 0.997 | 19276 | 0.998 | 22423 | 0.996 | 13976 | 0.996 | 21041 | 0.998 | 5 | 0.996 | 3.989 | 4.984999999999999 | |
| linkedubiq | 26577 | C26577G|(membrane_glycoprotein:C55G(Q19E)) | 15984 | 0.997 | 19283 | 0.999 | 22461 | 0.997 | 13998 | 0.998 | 21027 | 0.997 | 5 | 0.998 | 3.99 | 4.988 | |
| linked | 26610 | A26610G|(membrane_glycoprotein:A88G(T30A)) | 15976 | 0.674 | 19229 | 0.923 | 22361 | 0.609 | 13879 | 0.326 | 21003 | 0.734 | 5 | 0.326 | 2.94 | 3.266 | |
| 26656 | T26656G|(membrane_glycoprotein:T134G(F45C)) | 6 | 0.000 | 1 | 0.000 | 5 | 0.000 | 19368 | 0.455 | 2 | 0.000 | 5 | 0.455 | 0.0 | 0.455 | ||
| linked | 26681 | C26681T|(membrane_glycoprotein:C159T(F53F)) | 23604 | 0.997 | 20762 | 0.998 | 36532 | 0.998 | 23130 | 0.542 | 28480 | 0.997 | 5 | 0.542 | 3.99 | 4.532 | |
| linked | 26709 | G26709A|(membrane_glycoprotein:G187A(A63T)) | 23600 | 0.999 | 20774 | 0.999 | 36457 | 0.998 | 22983 | 0.539 | 28443 | 0.998 | 5 | 0.539 | 3.9939999999999998 | 4.5329999999999995 | |
| 26814 | G26814T|(membrane_glycoprotein:G292T(A98S)) | 2 | 0.000 | 1 | 0.000 | 5998 | 0.207 | 3 | 0.207 | 0.0 | 0.207 | ||||||
| 27039 | T27039G|(membrane_glycoprotein:T517G(S173A)) | 1 | 0.000 | 2784 | 0.138 | 2 | 0.138 | 0.0 | 0.138 | ||||||||
| 27136 | A27136G|(membrane_glycoprotein:A614G(K205R)) | 1 | 0.000 | 2 | 0.000 | 2793 | 0.138 | 3 | 0.000 | 4 | 0.138 | 0.0 | 0.138 | ||||
| 27199 | C27199T | 2 | 0.000 | 2779 | 0.138 | 2 | 0.000 | 3 | 0.138 | 0.0 | 0.138 | ||||||
| linked | 27259 | A27259C|(ORF6_protein:A58C(R20R)) | 28545 | 0.998 | 60310 | 0.997 | 45475 | 0.998 | 35151 | 0.924 | 76729 | 0.997 | 5 | 0.924 | 3.99 | 4.914000000000001 | |
| linked | 27322 | T27322C|(ORF6_protein:T121C(S41P)) | 2 | 0.000 | 2 | 0.000 | 5 | 0.000 | 2784 | 0.073 | 9 | 0.000 | 5 | 0.073 | 0.0 | 0.073 | |
| linkedubiq | 27382 | G27382C|(ORF6_protein:GAT181-183CTC(D61L)) | 14793 | 0.999 | 16141 | 0.993 | 39153 | 0.998 | 18463 | 0.999 | 43171 | 0.998 | 5 | 0.999 | 3.988 | 4.987 | |
| linkedubiq | 27383 | A27383T|(ORF6_protein:GAT181-183CTC(D61L)) | 14793 | 0.999 | 16141 | 0.993 | 39153 | 0.998 | 18463 | 0.999 | 43171 | 0.998 | 5 | 0.999 | 3.988 | 4.987 | |
| linkedubiq | 27384 | T27384C|(ORF6_protein:GAT181-183CTC(D61L)) | 14793 | 0.999 | 16141 | 0.993 | 39153 | 0.998 | 18463 | 0.999 | 43171 | 0.998 | 5 | 0.999 | 3.988 | 4.987 | |
| 27529 | T27529-27529del|(ORF7a_protein:136-136del(46fs)) | 2 | 0.000 | 1 | 0.000 | 2069 | 0.113 | 3 | 0.113 | 0.0 | 0.113 | ||||||
| ubiq | 27807 | C27807T|(ORF7b:C52T(L18L)) | 49941 | 0.998 | 37525 | 0.998 | 34449 | 0.999 | 53913 | 0.998 | 98910 | 0.998 | 5 | 0.998 | 3.993 | 4.991 | |
| ubiq | 27810 | T27810C|(ORF7b:T55C(F19L)) | 49936 | 0.997 | 37486 | 0.997 | 34413 | 0.998 | 53880 | 0.997 | 98917 | 0.998 | 5 | 0.997 | 3.99 | 4.987 | |
| linked | 28254 | A28254-28254del|(ORF8_protein:361-361del(121fs)) | 11008 | 0.099 | 9646 | 0.116 | 2 | 0.116 | 0.099 | 0.21500000000000002 | |||||||
| linkedubiq | 28271 | A28271T | 109102 | 0.999 | 110996 | 0.998 | 83071 | 0.999 | 83175 | 0.999 | 124127 | 0.999 | 5 | 0.999 | 3.995 | 4.994 | |
| 28276 | G28276T|(nucleocapsid_phosphoprotein:G3T(M1I)) | 42 | 0.000 | 78 | 0.001 | 42 | 0.001 | 9253 | 0.111 | 43 | 0.000 | 5 | 0.111 | 0.002 | 0.113 | ||
| linkedubiq | 28311 | C28311T|(nucleocapsid_phosphoprotein:C38T(P13L)) | 108955 | 0.998 | 111051 | 0.999 | 82988 | 0.998 | 83096 | 0.998 | 123989 | 0.998 | 5 | 0.998 | 3.993 | 4.991 | |
| linkedubiq | 28362 | GAGAACGCA28362-28370del|(nucleocapsid_phosphoprotein:GGAGAACGCAGT88-99GGTdel(GERS30-33Gdel)) | 98215 | 0.900 | 110967 | 0.998 | 82896 | 0.997 | 83044 | 0.997 | 123924 | 0.998 | 5 | 0.997 | 3.893 | 4.89 | |
| 28456 | G28456A|(nucleocapsid_phosphoprotein:G183A(K61K)) | 2 | 0.000 | 1 | 0.000 | 2 | 0.000 | 18311 | 0.221 | 5 | 0.000 | 5 | 0.221 | 0.0 | 0.221 | ||
| 28471 | C28471T|(nucleocapsid_phosphoprotein:C198T(F66F)) | 3 | 0.000 | 29 | 0.000 | 3 | 0.000 | 9529 | 0.115 | 1 | 0.000 | 5 | 0.115 | 0.0 | 0.115 | ||
| 28693 | T28693C|(nucleocapsid_phosphoprotein:T420C(N140N)) | 3 | 0.000 | 3 | 0.000 | 3 | 0.000 | 4758 | 0.188 | 1 | 0.000 | 5 | 0.188 | 0.0 | 0.188 | ||
| 28791 | C28791T|(nucleocapsid_phosphoprotein:C518T(A173V)) | 6 | 0.000 | 2 | 0.000 | 4732 | 0.188 | 3 | 0.188 | 0.0 | 0.188 | ||||||
| linked | 28881 | G28881A|(nucleocapsid_phosphoprotein:AGG607-609AAA(R203K)) | 30648 | 0.997 | 28554 | 0.997 | 19896 | 0.997 | 22245 | 0.757 | 44205 | 0.995 | 5 | 0.757 | 3.9859999999999998 | 4.742999999999999 | |
| linked | 28882 | G28882A|(nucleocapsid_phosphoprotein:AGG607-609AAA(R203K)) | 30648 | 0.997 | 28554 | 0.997 | 19896 | 0.997 | 22245 | 0.757 | 44205 | 0.995 | 5 | 0.757 | 3.9859999999999998 | 4.742999999999999 | |
| 28883 | G28883C|(nucleocapsid_phosphoprotein:GGA610-612CCA(G204P)) | 14 | 0.000 | 9 | 0.000 | 22 | 0.001 | 3216 | 0.109 | 13 | 0.000 | 5 | 0.109 | 0.001 | 0.11 | ||
| 28884 | G28884C|(nucleocapsid_phosphoprotein:GGA610-612CCA(G204P)) | 14 | 0.000 | 9 | 0.000 | 22 | 0.001 | 3216 | 0.109 | 13 | 0.000 | 5 | 0.109 | 0.001 | 0.11 | ||
| 28896 | C28896T|(nucleocapsid_phosphoprotein:C623T(A208V)) | 2 | 0.000 | 3213 | 0.109 | 2 | 0.109 | 0.0 | 0.109 | ||||||||
| 28906 | T28906G|(nucleocapsid_phosphoprotein:T633G(A211A)) | 1 | 0.000 | 5 | 0.000 | 5343 | 0.182 | 1 | 0.000 | 4 | 0.182 | 0.0 | 0.182 | ||||
| 28916 | G28916T|(nucleocapsid_phosphoprotein:G643T(G215C)) | 7 | 0.000 | 3 | 0.000 | 3 | 0.000 | 7028 | 0.239 | 13 | 0.000 | 5 | 0.239 | 0.0 | 0.239 | ||
| linked | 28958 | C28958A|(nucleocapsid_phosphoprotein:C685A(Q229K)) | 30881 | 0.998 | 28716 | 0.999 | 20027 | 0.999 | 22380 | 0.758 | 44586 | 0.998 | 5 | 0.758 | 3.9939999999999998 | 4.752 | |
| 29035 | T29035G|(nucleocapsid_phosphoprotein:T762G(A254A)) | 2 | 0.000 | 3 | 0.000 | 7135 | 0.241 | 5 | 0.000 | 4 | 0.241 | 0.0 | 0.241 | ||||
| 29084 | A29084G|(nucleocapsid_phosphoprotein:ACA811-813GTA(T271V)) | 5813 | 0.197 | 1 | 0.197 | 0 | 0.197 | ||||||||||
| 29085 | C29085T|(nucleocapsid_phosphoprotein:ACA811-813GTA(T271V)) | 5813 | 0.197 | 1 | 0.197 | 0 | 0.197 | ||||||||||
| 29364 | C29364T|(nucleocapsid_phosphoprotein:C1091T(P364L)) | 4 | 0.000 | 3 | 0.000 | 5 | 0.000 | 13311 | 0.101 | 5 | 0.000 | 5 | 0.101 | 0.0 | 0.101 | ||
| linked | 29510 | A29510C|(nucleocapsid_phosphoprotein:A1237C(S413R)) | 276516 | 0.998 | 216413 | 0.958 | 210691 | 0.998 | 220034 | 0.906 | 290536 | 0.998 | 5 | 0.906 | 3.952 | 4.858 | |
| 29700 | A29700G | 12 | 0.000 | 15 | 0.000 | 17 | 0.000 | 19625 | 0.172 | 11 | 0.000 | 5 | 0.172 | 0.0 | 0.172 | ||
| 29742 | Delta | G29742T | 16502 | 0.149 | 1 | 0.149 | 0 | 0.149 | |||||||||
| 29746 | AGT29746-29748del | 16495 | 0.149 | 1 | 0.149 | 0 | 0.149 |