COVID-19 Viral Genome Analysis Pipeline
Enabled by data from
XSpike
eXplore the Spike protein sequence in the SARS CoV-2 virus
Last update: Dec 3, 2021
Delta Variants
Global
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Evaluating 584089 sequences of length 2545
Sampled from 2021-10-04 to 2021-11-28.
Specified Date Range: (datetime.date(2021, 10, 4), datetime.date(2021, 12, 3))
Highest entropy sites for: Global
Site Entropy
95 0.6938
142 0.4263
222 0.3496
145 0.2541
1264 0.1253
112 0.0956
5 0.0913
613 0.0751
1078 0.0685
138 0.0685
850 0.0657
1104 0.0652
950 0.0591
36 0.0586
70 0.0527
251 0.0518
29 0.0485
181 0.0476
677 0.0470
1259 0.0424
289 0.0392
1141 0.0391
250 0.0383
258 0.0369
80 0.0359
484 0.0357
859 0.0349
67 0.0344
18 0.0338
809 0.0329
156 0.0325
675 0.0315
1162 0.0312
158 0.0309
1219 0.0309
157 0.0304
1073 0.0301
812 0.0292
215 0.0287
180 0.0282
26 0.0268
1020 0.0264
572 0.0257
1237 0.0252
845 0.0250
1124 0.0249
19 0.0236
1101 0.0230
27 0.0230
446 0.0229
Most highly correlated site-pairs for: Global
cramerV mutInfo
222 145 0.3876 0.1742
95 145 0.1144 0.0447
222 1264 0.1702 0.0314
158 157 0.7406 0.0302
156 158 0.7123 0.0299
156 157 0.6971 0.0297
29 250 0.5195 0.0275
145 36 0.1827 0.0261
222 36 0.1424 0.0214
145 1264 0.1229 0.0183
142 950 0.1298 0.0155
95 142 0.0640 0.0145
95 112 0.0648 0.0138
222 289 0.1541 0.0126
158 19 0.4193 0.0107
26 27 0.4474 0.0002 251 250 0.4472 0.0011 157 19 0.4172 0.0106 950 157 0.3512 0.0025 156 19 0.3358 0.0106 677 675 0.2697 0.0001 142 138 0.2560 0.0023 1078 258 0.2395 0.0101 484 158 0.1855 0.0026 484 157 0.1844 0.0026 251 859 0.1742 0.0008 250 859 0.1741 0.0008 950 80 0.1642 0.0001 613 29 0.1634 0.0072 950 446 0.1624 0.0002
Most common patterns for local area, where Local = Global
111111111111
111111111222222445666888889000111112222
1122236789134455588125558487177014555277002461356
58967967005282567801520189642357925090038144129794
LLTPATVAVDTSDGYEFREGDATPWVGETQQQPPAITDAKAHVGLPGMDV Global UK Eu-UK NAmer Asia Africa SAmer Ocean Local Exact Pct [Context]
584089 234724 141269 189875 9276 550 5501 2895 584089 <----------- Totals
..R.......I..D.G--...................N............ 177069 121251 31993 20252 1011 89 312 2162 177069 127081 71% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--...................N............ 157001 31025 41743 82143 1070 136 844 40 157001 114846 73% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R............G--...................N............ 38579 365 10663 24802 839 33 1876 1 38579 28378 73% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..DHG--...V...............N............ 23979 22400 1545 19 11 2 1 1 23979 19026 79% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] Delta+Y145H,A222V
..R.......I....G--...................N............ 17977 1535 7125 7373 1005 3 476 460 17977 12563 69% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R........L.D.G--...................N............ 7483 94 51 7332 3 0 2 1 7483 5696 76% [T19R,S112L,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta+S112L
..R..........D.G--...V...............N............ 7213 1069 3581 2229 302 0 14 18 7213 4535 62% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V
..R.......I..DHG--...V...............N...........L 6851 6795 52 3 0 0 0 1 6851 4210 61% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] Delta+Y145H,V1264L
..R...F...I..DHG--...V...............N............ 5492 5431 55 6 0 0 0 0 5492 4722 85% [T19R,V36F,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] Delta+Y145H,A222V
..R.......I..D.G--.................L.N............ 4739 273 4356 84 23 0 2 1 4739 3604 76% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,I850L,D950N] Delta
..R.......I.HD.G--...................N............ 4718 4301 101 309 6 0 1 0 4718 3609 76% [T19R,T95I,D138H,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
F.R.......I..D.G--...................N............ 4324 2027 1922 348 11 0 8 8 4324 3121 72% [L5F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--...................N....L....... 3995 1193 942 1836 15 0 8 1 3995 2718 68% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] Delta
..R.......I..D.G--...................N......F..... 3456 3360 73 23 0 0 0 0 3456 2959 85% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,L1141F] Delta
..R.......I..D.G--...................N..S......... 3208 2091 1098 15 2 1 0 1 3208 2577 80% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1078S] Delta
..R..........D.G--.....L.............N............ 2950 864 1658 415 12 1 0 0 2950 1880 63% [T19R,G142D,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R,D950N] Delta+T95_,P251L
..R........L...G--...................N............ 2587 1 6 2576 0 0 4 0 2587 1970 76% [T19R,S112L,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta+S112L
..R............G--...V...............N............ 2501 43 896 539 1009 0 14 0 2501 1876 75% [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V
..R..........D.G--...V...............N...........L 2454 63 139 2218 30 0 4 0 2454 1216 49% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] Delta+V1264L
..R..........D.G--...V.......H.......N............ 2431 1 21 2399 10 0 0 0 2431 1960 80% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,Q613H,D614G,P681R,D950N] Delta+T95_,A222V
..R..........D.G--...........H.......N............ 2412 776 975 648 11 0 2 0 2412 1825 75% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N]
F.R..........D.G--...................N............ 2383 550 581 1233 6 1 10 2 2383 1709 71% [L5F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--...................N...........L 2354 313 215 200 1600 0 7 19 2354 1151 48% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1264L] Delta+V1264L
..R..........D.G--...V...I...........N............ 2263 80 4 2177 2 0 0 0 2263 1768 78% [T19R,G142D,E156G,F157-,R158-,A222V,V289I,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V,V289I
..R............G--................................ 2235 0 652 1173 80 2 328 0 2235 1603 71% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R]
..R.......I..D.G--.............H.....N............ 1940 1082 677 148 3 7 23 0 1940 910 46% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N] Delta+FurinRelated
..R.......I..D.G--..................IN............ 1579 753 781 43 2 0 0 0 1579 725 45% [T19R,T95I,I101T,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T859I,D950N] Delta
..R.......I..D.G--..............S....N............ 1515 223 15 1275 1 0 0 1 1515 1064 70% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P809S,D950N] Delta
..R.......I..D.G--...................N..........Y. 1480 296 1168 14 2 0 0 0 1480 1051 71% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1259Y] Delta
..R.......I..D.G--............H......N............ 1442 134 43 1265 0 0 0 0 1442 990 68% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q675H,P681R,D950N] Delta+FurinRelated
..R..........D.G--......R............N..S......... 1430 3 1424 1 2 0 0 0 1430 1324 92% [T19R,G142D,E156G,F157-,R158-,W258R,L452R,T478K,D614G,P681R,D950N,A1078S]
..R.....I....D.G--...................N............ 1336 6 14 1315 0 0 1 0 1336 691 51% [T19R,V70I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R.......I....G--...................N....L....... 1309 16 218 1011 12 4 47 1 1309 743 56% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] Delta
..R..A.......D.G--....I......H.......N............ 1241 28 1106 98 1 7 1 0 1241 588 47% [T19R,T29A,G142D,E156G,F157-,R158-,T250I,L452R,T478K,Q613H,D614G,P681R,D950N]
..R......Y...D.G--...................N............ 1220 32 184 998 1 4 1 0 1220 847 69% [T19R,D80Y,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I....G--.................L.N............ 1166 11 1087 37 31 0 0 0 1166 734 62% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,I850L,D950N] Delta
..R.......I..D.G--V..................N............ 1119 1106 7 6 0 0 0 0 1119 481 42% [T19R,T95I,G142D,E156G,F157-,R158-,E180V,L452R,S459F,T478K,D614G,P681R,D950N] Delta
.FR.......I..D.G--...................N............ 1116 892 163 52 4 0 0 5 1116 747 66% [L18F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I....G--................................ 1098 19 431 446 125 0 77 0 1098 713 64% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R]
..R..........D.G--.V.................N............ 1079 161 672 207 22 10 7 0 1079 840 77% [T19R,G142D,E156G,F157-,R158-,G181V,L452R,T478K,D614G,P681R,D950N] Delta
..R............G--...V...............N...........L 1010 1 55 784 165 0 5 0 1010 518 51% [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] Delta+V1264L
..R.......I..D.G--...................N.......S.... 939 625 133 179 2 0 0 0 939 507 53% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162S] Delta
..R.......I..D.G--...................N.........I.. 936 568 302 63 2 1 0 0 936 809 86% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,M1237I] Delta
..R..A.......D.G--....I..............N............ 912 76 798 34 2 0 1 1 912 520 57% [T19R,T29A,G142D,E156G,F157-,R158-,T250I,L452R,T478K,D614G,P681R,D950N] Delta+T29A,T95_,T250I
..R.......I..D.G--...............S...N............ 839 353 473 12 1 0 0 0 839 741 88% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812S,D950N] Delta
..R............G--...V...I...........N............ 816 3 2 804 0 0 7 0 816 631 77% [T19R,E156G,F157-,R158-,A222V,V289I,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V,V289I
..R..........D.G--...................N..........H. 815 0 814 1 0 0 0 0 815 360 44% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1259H] Delta
..R....V.....D.G--...................N............ 811 606 29 171 4 1 0 0 811 426 52% [T19R,T22I,A67V,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--...................N...Y........ 793 486 53 249 5 0 0 0 793 658 82% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,H1101Y] Delta
..R..........D.G--.............H.....N............ 782 212 268 294 8 0 0 0 782 541 69% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N] Delta+FurinRelated
..R..........D.G--...................N..S......... 772 287 286 187 9 3 0 0 772 526 68% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1078S] Delta
..R.......I..D.G--...................N.N.......... 756 221 95 435 3 0 2 0 756 570 75% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1073N] Delta
..R.....I......G--...................N............ 732 0 13 719 0 0 0 0 732 395 53% [T19R,V70I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R......YI..D.G--...................N..S......... 723 721 2 0 0 0 0 0 723 620 85% [T19R,D80Y,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1078S] Delta
..R.......I..D.G--...................N.....V...... 722 528 143 39 1 0 2 9 722 510 70% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1124V] Delta
..R.......I..D.G--.........Q.........N............ 716 107 579 18 7 0 4 1 716 526 73% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R,D950N] Delta+E484Q
..R..I....I..D.G--...................N............ 684 242 417 24 0 0 0 1 684 557 81% [T19R,T29I,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R.......I..D.G--..........I........N............ 682 399 46 154 83 0 0 0 682 510 74% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,T572I,D614G,P681R,D950N] Delta
..R............G--.....L.............N............ 674 24 537 108 2 0 3 0 674 549 81% [T19R,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R,D950N] Delta+T95_,P251L
..R.......I..D.G--...................N...........L 672 352 195 116 7 0 1 1 672 426 63% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1264L] Delta+V1264L
..R..........D.G--..........I........N............ 660 34 211 395 9 3 8 0 660 455 68% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,T572I,D614G,P681R,D950N] Delta
..R.......I..D.G--...................NS........... 650 562 72 15 0 0 0 1 650 383 58% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1020S] Delta
..R.......I..D.G--...........H.......N............ 650 378 246 16 4 3 3 0 650 410 63% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N]
..R.......I..D.G--.V.................N............ 640 525 69 46 0 0 0 0 640 430 67% [T19R,T95I,G142D,E156G,F157-,R158-,G181V,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I.HD.G--................S..N............ 635 626 9 0 0 0 0 0 635 541 85% [T19R,T95I,D138H,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A845S,D950N] Delta
F.R............G--...................N............ 623 3 192 387 11 0 30 0 623 433 69% [L5F,T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--...................N........V... 607 439 75 91 2 0 0 0 607 484 79% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1219V] Delta
..RS......I..D.G--...................N............ 595 375 138 77 4 0 0 1 595 351 58% [T19R,P26S,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..................................N............ 593 0 52 442 40 29 30 0 593 422 71% [T19R,L452R,T478K,D614G,P681R,D950N]
..R.....F.I..D.G--...................N............ 586 514 59 13 0 0 0 0 586 480 81% [T19R,V70F,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R....S.....D.G--...................N............ 561 379 160 21 1 0 0 0 561 431 76% [T19R,A67S,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.S........D.G--...................N............ 556 102 250 203 0 0 1 0 556 408 73% [T19R,A27S,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I....G--..............S....N............ 536 2 4 526 4 0 0 0 536 368 68% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P809S,D950N] Delta
..R..........D.G--...................N.....V...... 515 117 237 161 0 0 0 0 515 302 58% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1124V] Delta
.....................................N............ 509 0 2 506 1 0 0 0 509 417 81% [L452R,T478K,D614G,P681R,D950N]
..R..........D.G--...................N........C... 501 300 35 164 0 1 1 0 501 386 77% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1219C] Delta
..R.......I..D.G--........V..........N............ 491 366 52 59 10 1 0 3 491 382 77% [T19R,T95I,G142D,E156G,F157-,R158-,G446V,L452R,T478K,D614G,P681R,D950N] Delta
..R............G--.V.................N............ 481 4 392 77 4 1 3 0 481 313 65% [T19R,E156G,F157-,R158-,G181V,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I....G--.............H.....N............ 471 9 223 58 3 0 178 0 471 191 40% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N,L1265F] Delta+FurinRelated
..R.......I....G--...................N.N.......... 461 2 42 195 0 0 221 1 461 371 80% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1073N] Delta
..R..........D.G--...................N...Y........ 452 48 20 381 2 0 1 0 452 417 92% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,H1101Y] Delta
..R..........D.G--...............L...N............ 440 212 134 87 4 1 2 0 440 300 68% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812L,D950N] Delta
..R.......I..D.G--..Y................N............ 427 366 21 34 5 0 1 0 427 329 77% [T19R,T95I,G142D,E156G,F157-,R158-,D215Y,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--...................N........C... 410 331 73 6 0 0 0 0 410 284 69% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1219C] Delta
..R.......I..D.G--......L............N............ 406 215 25 156 2 3 0 5 406 177 43% [T19R,T95I,G142D,E156G,F157-,R158-,W258L,L452R,T478K,D614G,P681R,D950N]
..R..........D.G--...................NS........... 397 192 74 129 0 1 1 0 397 349 87% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1020S] Delta
..R..........D.G--........V..........N............ 393 50 135 200 5 1 2 0 393 288 73% [T19R,G142D,E156G,F157-,R158-,G446V,L452R,T478K,D614G,P681R,D950N] Delta
..R............G--...........H.......N............ 393 4 153 213 13 0 10 0 393 234 59% [T19R,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N]
.FR.......I..DHG--...V...............N...........L 372 372 0 0 0 0 0 0 372 326 87% [L18F,T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] Delta+Y145H,V1264L
..R.......I..D.G--................S..N............ 372 334 14 24 0 0 0 0 372 137 36% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,P479S,D614G,P681R,A845S,D950N] Delta
..R.......I...HG--...V...............N............ 370 109 254 2 5 0 0 0 370 232 62% [T19R,T95I,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] Delta+Y145H,A222V
.FR..........D.G--...................N............ 357 24 126 203 1 2 1 0 357 248 69% [L18F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--......L............N............ 352 22 137 183 4 0 6 0 352 321 91% [T19R,G142D,E156G,F157-,R158-,W258L,L452R,T478K,D614G,P681R,D950N]
F.R.......I....G--...................N............ 350 19 206 105 15 0 3 2 350 226 64% [L5F,T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--...................N.T.......... 336 333 3 0 0 0 0 0 336 288 85% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1073T] Delta
..R..........D.G--...................N....L....... 332 182 31 113 3 0 3 0 332 300 90% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] Delta
..R..........D.G--...................N.........I.. 326 142 81 102 1 0 0 0 326 214 65% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,M1237I] Delta
..R..........D.G--................S..N............ 324 149 53 118 4 0 0 0 324 258 79% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A845S,D950N] Delta
..R......YI..D.G--...................NS........... 317 11 306 0 0 0 0 0 317 271 85% [T19R,D80Y,T95I,G142D,E156G,F157-,R158-,T323I,L452R,T478K,D614G,P681R,D950N,A1020S,T1027I] Delta
..R............G--...V............................ 317 0 43 65 207 0 2 0 317 245 77% [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R]
..R.......I..D.G--...................N.......L.... 314 181 98 34 1 0 0 0 314 231 73% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162L] Delta
..R.......I..D.G--.E.................N............ 308 215 92 0 1 0 0 0 308 278 90% [T19R,T95I,G142D,E156G,F157-,R158-,G181E,L452R,T478K,D614G,P681R,D950N] Delta
..R......Y.....G--...................N............ 306 2 56 247 1 0 0 0 306 157 51% [T19R,D80Y,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R............G--..........I........N............ 294 5 164 112 4 7 2 0 294 216 73% [T19R,E156G,F157-,R158-,L452R,T478K,T572I,D614G,P681R,D950N] Delta
..RL.........D.G--...................N............ 292 55 38 197 0 1 1 0 292 232 79% [T19R,P26L,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--...................N........V... 284 220 51 3 4 1 0 5 284 186 65% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1219V] Delta
..R.S.....I..D.G--...................N............ 282 143 59 72 7 0 1 0 282 168 59% [T19R,A27S,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--..................IN............ 278 60 22 191 0 0 5 0 278 216 77% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T859I,D950N] Delta
..R.V.....I..D.G--...................N............ 273 208 59 4 1 1 0 0 273 228 83% [T19R,A27V,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--...V...............N............ 264 142 74 28 12 1 6 1 264 148 56% [T19R,T95I,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N]
F.R.......I..DHG--...V...............N............ 263 248 15 0 0 0 0 0 263 208 79% [L5F,T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] Delta+Y145H,A222V
..R.......I..D.G--..................NN............ 260 5 232 7 0 16 0 0 260 237 91% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T859N,D950N] Delta
..R..I.......D.G--...................N............ 259 17 18 224 0 0 0 0 259 214 82% [T19R,T29I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R.......I..D.G--...S...............N............ 257 85 136 33 1 0 1 1 257 212 82% [T19R,T95I,G142D,E156G,F157-,R158-,A222S,L452R,T478K,D614G,P681R,D950N]
..R.....I.I..DHG--...V...............N............ 256 27 229 0 0 0 0 0 256 216 84% [T19R,V70I,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N]
..R.......I....G--............H......N............ 254 0 5 246 3 0 0 0 254 187 73% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,Q675H,P681R,D950N] Delta+FurinRelated
..R....V..I..D.G--...................N............ 251 219 18 12 2 0 0 0 251 217 86% [T19R,A67V,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R............G--.............H.....N............ 245 1 114 116 4 0 10 0 245 189 77% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N] Delta+FurinRelated
..R......YI..D.G--...................N............ 239 122 102 15 0 0 0 0 239 161 67% [T19R,D80Y,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.....F....D.G--...................N............ 239 10 18 208 1 0 2 0 239 208 87% [T19R,V70F,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R..........D.G--...................N..........Y. 232 33 73 126 0 0 0 0 232 101 43% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A684V,D950N,D1259Y] Delta
..R.......I..D.G--..H..............L.N............ 232 1 231 0 0 0 0 0 232 227 97% [T19R,T95I,G142D,E156G,F157-,R158-,D215H,L452R,T478K,D614G,P681R,I850L,D950N] Delta
..R..........D.G--.........Q.........N............ 227 8 29 186 3 0 1 0 227 119 52% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R,D950N] Delta+E484Q
..R.......I..D.G--Q..................N............ 227 13 195 1 18 0 0 0 227 184 81% [T19R,T95I,G142D,E156G,F157-,R158-,E180Q,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I....G--........................L....... 226 1 11 203 1 0 10 0 226 113 50% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,V1104L]
..R.......I..D.G--...................N..........H. 221 0 214 7 0 0 0 0 221 146 66% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1259H] Delta
..R..........D.G--..HV...............N............ 221 151 68 1 1 0 0 0 221 170 76% [T19R,G142D,E156G,F157-,R158-,D215H,A222V,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V
..R..........D.G--...................N.......L.... 219 55 31 127 6 0 0 0 219 168 76% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162L] Delta
..R..........D.G--................................ 214 11 71 78 20 1 33 0 214 140 65% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R]
..R.......I..D.G--.........Q.........N....L....... 214 145 51 14 1 2 1 0 214 184 85% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R,D950N,V1104L] Delta+E484Q
..R..........D.G--............H......N............ 211 154 9 48 0 0 0 0 211 145 68% [V6F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q675H,P681R,D950N] Delta+FurinRelated
..R..........D.G--..Y................N............ 211 61 31 112 6 0 1 0 211 121 57% [T19R,G142D,E156G,F157-,R158-,D215Y,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..........................N............ 210 0 115 36 25 33 1 0 210 140 66% [T19R,T95I,L452R,T478K,D614G,P681R,D950N]
..R..........D.G--...................N.......S.... 199 44 77 76 2 0 0 0 199 103 51% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162S] Delta
..R..........D.G--...................N.N.......... 195 25 27 138 1 1 3 0 195 116 59% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1073N] Delta
..R............G--...................N...........L 194 6 63 91 31 0 2 1 194 133 68% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1264L] Delta+V1264L
..R....S..I..D.G--...................N............ 192 159 12 21 0 0 0 0 192 160 83% [T19R,A67S,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--.............H....IN............ 191 89 53 49 0 0 0 0 191 160 83% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,T859I,D950N] Delta+FurinRelated
..R.......I..D.G--....I..............N............ 187 165 16 6 0 0 0 0 187 119 63% [T19R,T95I,G142D,E156G,F157-,R158-,T250I,L452R,T478K,D614G,P681R,D950N]
..R.......I..D.G--...............L...N............ 184 149 19 13 3 0 0 0 184 109 59% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812L,D950N] Delta
..R............G--...................N..S......... 182 0 98 82 1 0 1 0 182 147 80% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1078S] Delta
..R..A.........G--....I..............N............ 179 5 139 13 22 0 0 0 179 127 70% [T19R,T29A,E156G,F157-,R158-,T250I,L452R,T478K,D614G,P681R,D950N] Delta+T29A,T95_,T250I
..R.......I..D.G--VV.................N............ 177 177 0 0 0 0 0 0 177 145 81% [T19R,T95I,G142D,E156G,F157-,R158-,E180V,G181V,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--.....H.............N............ 174 1 162 11 0 0 0 0 174 155 89% [T19R,G142D,E156G,F157-,R158-,P251H,L452R,T478K,D614G,P681R,D950N]
..R..........D.G--...V...............N..S......... 172 0 7 0 165 0 0 0 172 133 77% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,A701S,D950N,A1078S] Delta+T95_,A222V
..R.......I..D.G--...................N.M.......... 167 166 1 0 0 0 0 0 167 159 95% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1073M,V1133I] Delta
..R..........D.G--...S...............N............ 165 45 22 97 0 0 1 0 165 95 57% [T19R,G142D,E156G,F157-,R158-,A222S,L452R,T478K,D614G,P681R,D950N]
..R.......I..D.G--.........K.........N............ 165 114 44 5 0 0 2 0 165 137 83% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,E484K,D614G,P681R,D950N]
..R.......I..D-G--...................N............ 158 155 1 2 0 0 0 0 158 139 87% [T19R,T95I,G142D,V143D,Y144-,Y145-,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.........YD.G--...................N............ 155 24 69 59 1 0 2 0 155 134 86% [T19R,D138Y,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R....V.....D.G--...V...............N............ 154 5 53 4 0 0 92 0 154 107 69% [T19R,A67V,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V
..RL......I..D.G--...................N............ 154 120 17 17 0 0 0 0 154 120 77% [T19R,P26L,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--...............S...N............ 150 19 15 113 3 0 0 0 150 122 81% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812S,D950N] Delta
..R..........D.G--...V........K......N............ 150 0 150 0 0 0 0 0 150 143 95% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,Q675K,P681R,D950N] Delta+FurinRelated
.F.S........Y..............K...................... 148 3 3 7 1 0 134 0 148 46 31% [L18F,T20N,P26S,D138Y,R190S,K417T,E484K,N501Y,D614G,H655Y,T1027I,V1176F] Gamma
.............D.G--...................N............ 148 0 62 68 13 5 0 0 148 100 67% [G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R.S..........G--...................N............ 146 0 75 68 1 0 2 0 146 60 41% [T19R,A27S,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--.R.................N............ 140 1 12 126 0 0 1 0 140 97 69% [T19R,G142D,E156G,F157-,R158-,G181R,L452R,T478K,D614G,P681R,D950N] Delta
F.R..........D.G--..................IN............ 140 0 138 2 0 0 0 0 140 138 98% [L5F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T859I,D950N] Delta
F.R.......I..D.G--...............S...N............ 138 41 97 0 0 0 0 0 138 129 93% [L5F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812S,D950N] Delta
..R.......I.AD.G--...................N............ 135 133 0 2 0 0 0 0 135 83 61% [T19R,T95I,D138A,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R...F...I..D.G--...................N............ 133 113 4 16 0 0 0 0 133 108 81% [T19R,V36F,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--.........A.........N............ 131 1 17 113 0 0 0 0 131 109 83% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,E484A,D614G,P681R,D950N]
..R.......I.YD.G--...................N............ 127 89 16 17 3 0 2 0 127 113 88% [T19R,T95I,D138Y,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--K..................N............ 126 126 0 0 0 0 0 0 126 100 79% [T19R,T95I,G142D,E156G,F157-,R158-,L179S,E180K,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I....G--...V...............N............ 123 1 39 15 38 0 30 0 123 45 36% [T19R,T95I,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N]
..R.......I....G--...................N..........Y. 122 4 103 14 1 0 0 0 122 91 74% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1259Y] Delta
..R....V.......G--...V...............N.........I.. 122 0 122 0 0 0 0 0 122 113 92% [T19R,A67V,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,Q1208H,M1237I] Delta+T95_,A222V
..R.......I....G--...................N..S......... 121 70 39 8 1 0 3 0 121 93 76% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1078S] Delta
..R..........D.G--......R............N............ 118 14 96 5 2 0 0 1 118 45 38% [T19R,G142D,E156G,F157-,R158-,W258R,L452R,T478K,D614G,P681R,D950N]
..R..........D.G--...VI..............N............ 118 5 113 0 0 0 0 0 118 107 90% [T19R,G142D,E156G,F157-,R158-,A222V,T250I,S255F,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V
..RS.........D.G--...................N............ 118 7 28 83 0 0 0 0 118 80 67% [T19R,P26S,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..DHG--...................N............ 116 88 23 5 0 0 0 0 116 82 70% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R........L...G--................................ 113 0 0 111 0 0 2 0 113 89 78% [T19R,S112L,E156G,F157-,R158-,L452R,T478K,D614G,P681R]
.FR............G--...................N............ 113 0 18 91 2 0 2 0 113 81 71% [L18F,T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..RL...........G--...................N............ 112 0 22 86 0 0 4 0 112 51 45% [T19R,P26L,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R....S.....D.G--...V...............N............ 109 0 109 0 0 0 0 0 109 105 96% [V11I,T19R,A67S,G142D,E156G,F157-,R158-,A222V,S255F,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V
..R.......I....G--...................N...Y........ 109 1 21 85 1 0 0 1 109 77 70% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,H1101Y] Delta
..R.......I..D.......................N............ 109 0 101 6 2 0 0 0 109 84 77% [T19R,T95I,G142D,L452R,T478K,D614G,P681R,D950N]
..R..........D.G--................V..N............ 108 1 24 83 0 0 0 0 108 93 86% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A845V,D950N] Delta
..R.......I..D.G--.............H.....N...........A 108 0 108 0 0 0 0 0 108 102 94% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N,V1264A,L1265F] Delta+FurinRelated
..R............G--...................N.....V...... 106 0 47 56 2 0 1 0 106 70 66% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1124V] Delta
..R.......I..D.G--.......L...........N............ 106 92 12 2 0 0 0 0 106 80 75% [T19R,T95I,G142D,E156G,F157-,R158-,V289L,L452R,T478K,D614G,P681R,D950N] Delta
..R............G--...................NS........... 104 0 43 59 0 0 2 0 104 68 65% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1020S] Delta
..R........L.D.G--...................N...........L 101 0 0 100 1 0 0 0 101 92 91% [T19R,S112L,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1264L] Delta+V1264L
..R..........D.G--..............S....N............ 98 4 27 67 0 0 0 0 98 90 91% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P809S,D950N] Delta
..R...F...I..DHG--...V..........L....N............ 98 98 0 0 0 0 0 0 98 74 75% [T19R,V36F,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,P809L,D950N] Delta+Y145H,A222V
..R..A.........G--....I...V..........N............ 98 0 1 0 97 0 0 0 98 92 93% [T19R,T29A,E156G,F157-,R158-,T250I,G446V,L452R,T478K,D614G,P681R,D950N] Delta+T29A,T95_,T250I
..R.......I..DHG--.A.V...............N............ 98 98 0 0 0 0 0 0 98 96 97% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,G181A,A222V,L452R,T478K,D614G,P681R,D950N] Delta+Y145H,A222V
..R..........D.G--......L...I........N............ 97 0 0 97 0 0 0 0 97 79 81% [T19R,G142D,E156G,F157-,R158-,W258L,L452R,T478K,T572I,D614G,P681R,D950N]
..R............G--...................N...Y........ 95 1 36 53 0 0 5 0 95 48 50% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,H1101Y] Delta
..R............G--...................N....L....... 95 0 53 41 1 0 0 0 95 81 85% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] Delta
..R.......I....G--...................N...........L 94 5 25 59 4 0 0 1 94 78 82% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1264L] Delta+V1264L
..R.......I..D.G--...............R...N............ 94 3 91 0 0 0 0 0 94 92 97% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812R,D950N] Delta
..R............G--...................N........C... 93 0 6 85 0 0 2 0 93 65 69% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1219C] Delta
..R..........D.G--..H................N............ 93 4 47 40 2 0 0 0 93 60 64% [T19R,G142D,E156G,F157-,R158-,D215H,L452R,T478K,D614G,P681R,D950N] Delta
..R.....F......G--...................N............ 93 2 48 41 0 0 2 0 93 81 87% [T19R,V70F,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R............G--...V...............N.....V...... 93 0 92 1 0 0 0 0 93 74 79% [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,G1124V] Delta+T95_,A222V
..R.......I....G--Q..................N............ 92 0 88 0 4 0 0 0 92 56 60% [T19R,T95I,E156G,F157-,R158-,E180Q,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.......................N............ 91 1 72 17 0 1 0 0 91 74 81% [T19R,G142D,L452R,T478K,D614G,P681R,D950N]
..R..A....I.HD.G--...................N............ 91 88 3 0 0 0 0 0 91 85 93% [T19R,T29A,T95I,D138H,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R.......I..D.G--................................ 90 9 40 21 9 1 10 0 90 57 63% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R]
..R.......I..D.G--.....L.............N............ 89 62 25 2 0 0 0 0 89 77 86% [T19R,T95I,G142D,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R,D950N]
..R.......IA.D.G--...................N............ 89 88 1 0 0 0 0 0 89 72 80% [T19R,T95I,S112A,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R..........D.G--K..................N............ 89 1 0 88 0 0 0 0 89 61 68% [T19R,G142D,E156G,F157-,R158-,E180K,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I....G--..........I........N............ 88 2 39 47 0 0 0 0 88 78 88% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,T572I,D614G,P681R,D950N] Delta
..R.......I....G--...................NS........... 87 4 76 7 0 0 0 0 87 60 68% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1020S] Delta
..R..A.........G--....I......H.......N............ 87 1 69 16 1 0 0 0 87 49 56% [T19R,T29A,E156G,F157-,R158-,T250I,T299I,L452R,T478K,Q613H,D614G,P681R,D950N] Delta+T29A,T95_,T250I,T299I,Q613H
..R.......I..D.G--................V..N............ 87 71 9 4 2 1 0 0 87 52 59% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A845V,D950N] Delta
F.R........L.D.G--...................N............ 86 1 0 85 0 0 0 0 86 69 80% [L5F,T19R,S112L,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta+S112L
..R............G--...................N.N.......... 85 0 35 37 0 1 12 0 85 32 37% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1073N] Delta
..R............G--........V..........N............ 84 2 22 45 6 0 9 0 84 59 70% [T19R,E156G,F157-,R158-,G446V,L452R,T478K,D614G,P681R,D950N] Delta
..R....V.......G--...................N............ 82 2 31 49 0 0 0 0 82 57 69% [T19R,A67V,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
........-......................................... 81 4 50 7 20 0 0 0 81 54 66% [H69-,V70-,Y144-,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] Alpha
..R.......I....G--...................N.......S.... 80 1 53 26 0 0 0 0 80 46 57% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162S] Delta
..R.......I....G--.................L.............. 80 2 73 4 1 0 0 0 80 56 70% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,I850L]
..R..I....I....G--...................N............ 79 0 65 13 1 0 0 0 79 62 78% [T19R,T29I,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
F.R..........D.G--..Y................N............ 79 0 79 0 0 0 0 0 79 75 94% [L5F,T19R,G142D,E156G,F157-,R158-,D215Y,L452R,T478K,D614G,P681R,D950N,G1167V] Delta
..R.......I..DHG--...V......I........N............ 76 73 3 0 0 0 0 0 76 55 72% [T19R,H69R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,T572I,D614G,P681R,D950N] Delta+Y145H,A222V
..R.....F.I..DHG--...V...............N............ 76 76 0 0 0 0 0 0 76 74 97% [T19R,V70F,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N]
..R.......I..D.G--.....S.............N............ 76 3 0 73 0 0 0 0 76 58 76% [T19R,T95I,G142D,E156G,F157-,R158-,P251S,L452R,T478K,D614G,P681R,D950N]
..R.......I..DHG--...V...............N..S......... 76 64 11 0 1 0 0 0 76 58 76% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,A1078S] Delta+Y145H,A222V
.FR.......I..D.G--...........H.......N..........Y. 74 0 74 0 0 0 0 0 74 68 91% [L18F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N,D1259Y]
F.R.......I..D.G--............H......N............ 73 0 0 73 0 0 0 0 73 66 90% [L5F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q675H,P681R,D950N] Delta+FurinRelated
..R..........D.G--...V...............N.....V...... 73 4 68 1 0 0 0 0 73 56 76% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,G1124V] Delta+T95_,A222V
..R..........D.G--.....L............IN............ 73 53 20 0 0 0 0 0 73 47 64% [T19R,G142D,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R,T859I,D950N,D1127G] Delta+T95_,P251L
..R.......I..DHG--...VI..............N............ 72 72 0 0 0 0 0 0 72 67 93% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,T250I,L452R,T478K,D614G,P681R,D950N] Delta+Y145H,A222V
..R..........D.G--........S..........N............ 72 1 16 54 0 0 1 0 72 52 72% [T19R,G142D,E156G,F157-,R158-,G446S,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--...................N.........T.. 72 72 0 0 0 0 0 0 72 68 94% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,M1237T] Delta
...............G--...................N............ 71 0 1 69 0 0 1 0 71 53 74% [E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R..........D.G--................S..N...........L 71 0 0 0 71 0 0 0 71 59 83% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A845S,D950N,V1264L] Delta+V1264L
..R.......I....G--.........Q.........N............ 70 7 45 9 9 0 0 0 70 54 77% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R,D950N] Delta+E484Q
..R..........D.G--.V.........H.......N............ 70 1 68 1 0 0 0 0 70 67 95% [T19R,G142D,E156G,F157-,R158-,G181V,L452R,T478K,Q613H,D614G,P681R,D950N]
..R.....-.I..D.G--...................N............ 68 46 21 1 0 0 0 0 68 28 41% [T19R,H69-,V70-,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R.......I..D.G--..H................N............ 68 45 3 15 4 0 1 0 68 46 67% [T19R,T95I,G142D,E156G,F157-,R158-,D215H,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--.....H.............N...Y........ 68 1 66 0 0 0 1 0 68 66 97% [T19R,G142D,E156G,F157-,R158-,P251H,L452R,T478K,D614G,P681R,D950N,H1101Y]
FFR.......I..D.G--...................N............ 67 3 1 63 0 0 0 0 67 57 85% [L5F,L18F,T19R,T95I,G142D,E156G,F157-,R158-,T323I,L452R,T478K,D614G,P681R,D950N] Delta
..R.S.....I....G--...................N............ 65 0 22 42 0 0 1 0 65 50 76% [T19R,A27S,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..RS.........D.G--...V...............N............ 65 0 63 0 2 0 0 0 65 57 87% [T19R,P26S,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V
..R.......I..D.G--.........Q.......L.N............ 65 0 65 0 0 0 0 0 65 63 96% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R,I850L,D950N] Delta+E484Q
..R............G--.........Q.........N............ 63 0 9 45 1 0 7 1 63 43 68% [T19R,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R,D950N] Delta+E484Q
..R.......I....G--...S...............N............ 63 0 50 9 1 0 3 0 63 59 93% [T19R,T95I,E156G,F157-,R158-,A222S,L452R,T478K,D614G,P681R,D950N]
..R..I....I..DHG--...V...............N...........L 61 61 0 0 0 0 0 0 61 58 95% [S13T,T19R,T29I,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] Delta+Y145H,V1264L
..RS......I..D.G--...................N..S......... 61 1 60 0 0 0 0 0 61 59 96% [T19R,P26S,L54F,T95I,G142D,E156G,F157-,R158-,A262S,L452R,T478K,D614G,P681R,D950N,A1078S] Delta
..R............G--...............S...N............ 60 0 11 46 1 0 2 0 60 40 66% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812S,D950N] Delta
..R.......I....G--........V..........N............ 60 3 22 18 12 0 5 0 60 43 71% [T19R,T95I,E156G,F157-,R158-,G446V,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I....G--.V.................N............ 59 3 45 4 5 2 0 0 59 44 74% [T19R,T95I,E156G,F157-,R158-,G181V,L452R,T478K,D614G,P681R,D950N] Delta
..R....V.....D.G--...V...............N.........I.. 59 3 56 0 0 0 0 0 59 28 47% [T19R,A67V,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,M1237I] Delta+T95_,A222V
..R.......I....G--...................N.......A.... 59 0 0 0 0 0 0 59 59 57 96% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162A] Delta
..R............G--...S...............N............ 58 0 10 46 0 0 2 0 58 25 43% [T19R,E156G,F157-,R158-,A222S,L452R,T478K,D614G,P681R,D950N]
..R.......I..DHG--...V...............N.........I.. 58 51 7 0 0 0 0 0 58 44 75% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,M1237I] Delta+Y145H,A222V
F.R.......I..DHG--...V...............N.....V...... 58 0 58 0 0 0 0 0 58 56 96% [L5F,T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,G1124V] Delta+Y145H,A222V
..R.......I..D.G--................S..N......F..... 58 56 2 0 0 0 0 0 58 57 98% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A845S,D950N,L1141F] Delta
..R.....-......G--...................N............ 57 0 41 12 3 0 1 0 57 35 61% [T19R,H69-,V70-,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R..........D.G--.....L.............N..........H. 57 0 56 1 0 0 0 0 57 35 61% [T19R,G142D,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R,D950N,D1259H] Delta+T95_,P251L
.FR..........D.G--.....L.............N............ 57 13 44 0 0 0 0 0 57 50 87% [L18F,T19R,G142D,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R,D950N] Delta+T95_,P251L
..R.......I.HD.G--...................NS........... 57 57 0 0 0 0 0 0 57 56 98% [T19R,T95I,D138H,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1020S] Delta
..R..........D.G--..G................N............ 56 2 2 52 0 0 0 0 56 41 73% [T19R,G142D,E156G,F157-,R158-,D215G,L452R,T478K,D614G,P681R,D950N] Delta
.FR.......I....G--...................N............ 56 4 37 12 3 0 0 0 56 37 66% [L18F,T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--............K......N............ 54 54 0 0 0 0 0 0 54 51 94% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q675K,P681R,D950N] Delta+FurinRelated
..R............G--..................IN............ 53 0 8 44 0 0 1 0 53 33 62% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T859I,D950N] Delta
..R............G--...................N.......L.... 53 0 11 38 1 0 3 0 53 40 75% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162L] Delta
..R.......I..D.G--...................NV........... 53 47 1 4 0 0 0 1 53 38 71% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1020V] Delta
..R..........D.G--..YV...............N............ 53 0 1 52 0 0 0 0 53 37 69% [T19R,G142D,E156G,F157-,R158-,D215Y,A222V,R237S,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V
..R............G--.R.................N............ 53 0 1 52 0 0 0 0 53 34 64% [T19R,E156G,F157-,R158-,G181R,L452R,T478K,D614G,P681R,D950N] Delta
..R............G--................S..N............ 52 0 19 31 1 0 1 0 52 40 76% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A845S,D950N] Delta
..R.......I..DHG--...V.........H.....N............ 52 52 0 0 0 0 0 0 52 51 98% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,Q677H,P681R,D950N] Delta+FurinRelated
..........I...N............K.........N............ 52 0 1 13 0 0 38 0 52 24 46% [T95I,+143T,Y144S,Y145N,R346K,E484K,N501Y,D614G,P681H,D950N] Mu
..R.......I..D..--...................N............ 52 0 0 52 0 0 0 0 52 48 92% [T19R,T95I,G142D,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..I..........D.G--...................N............ 52 4 14 34 0 0 0 0 52 27 51% [T19I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R..I.........G--...................N............ 52 0 8 41 1 0 2 0 52 28 53% [T19R,T29I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R.....-....D.G--...................N............ 51 15 3 32 1 0 0 0 51 40 78% [T19R,H69-,V70-,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R.........HD.G--...................N............ 51 4 0 47 0 0 0 0 51 37 72% [T19R,D138H,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R............G--...V...........................L 51 0 1 46 3 0 1 0 51 24 47% [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,V1264L]
..R..........D.G--............R......N............ 51 0 47 2 2 0 0 0 51 48 94% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q675R,P681R,D950N] Delta+FurinRelated
.FR.......I..D.G--...................N.......S.... 51 51 0 0 0 0 0 0 51 50 98% [L18F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162S] Delta
..R.S........D.G--...................N...Y........ 51 0 0 51 0 0 0 0 51 48 94% [T19R,A27S,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,H1101Y] Delta
F.R.......I..D.G--...................N.......S.... 50 43 6 1 0 0 0 0 50 49 98% [L5F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162S] Delta
..R.V........D.G--...................N............ 49 1 17 30 1 0 0 0 49 34 69% [T19R,A27V,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..RS...........G--...................N............ 49 1 13 30 0 0 5 0 49 37 75% [T19R,P26S,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I....G--...................N.........I.. 49 7 9 32 1 0 0 0 49 37 75% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,M1237I] Delta
..R.......I....G--...................N.....V...... 49 3 23 20 3 0 0 0 49 36 73% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1124V] Delta
..R..........D.G--...................N.E.......... 49 45 3 1 0 0 0 0 49 48 97% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1073E] Delta
..R..........D.G--...................NV........... 48 1 22 24 1 0 0 0 48 43 89% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1020V] Delta
..RS......I..D.G--...V...............N............ 48 6 42 0 0 0 0 0 48 45 93% [T19R,P26S,T95I,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N]
..R.......I..D.....................L.N............ 47 0 47 0 0 0 0 0 47 36 76% [T19R,T95I,G142D,L452R,T478K,D614G,P681R,I850L,D950N]
..R.......I....G--..E................N............ 47 0 6 41 0 0 0 0 47 38 80% [T19R,T95I,E156G,F157-,R158-,D215E,L452R,T478K,D614G,P681R,D950N] Delta
..R......YI....G--...................NS........... 47 0 47 0 0 0 0 0 47 30 63% [T19R,D80Y,T95I,E156G,F157-,R158-,T323I,L452R,T478K,D614G,P681R,D950N,A1020S,T1027I] Delta
.......V-.I..D-...........SA...................... 46 0 2 2 2 37 0 3 46 37 80% [A67V,H69-,V70-,T95I,G142D,V143-,Y144-,Y145-,N211-,L212I,+214EPE,G339D,S371L,S373P,S375F,K417N,N440K,G446S,S477N,T478K,E484A,Q493R,G496S,Q498R,N501Y,Y505H,T547K,D614G,H655Y,N679K,P681H,N764K,D796Y,N856K,Q954H,N969K,L981F]
..R.....L.I..D.G--...................N............ 46 27 18 0 1 0 0 0 46 36 78% [T19R,V70L,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R.......I....G--.............H.................. 46 0 9 2 1 0 34 0 46 25 54% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R]
F.R.......I.HD.G--...................N............ 46 44 0 2 0 0 0 0 46 27 58% [L5F,T19R,T95I,D138H,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
F.R..........D.G--...V...............N............ 46 8 14 23 1 0 0 0 46 30 65% [L5F,T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V
..R.......I....G--......L............N............ 46 3 1 36 6 0 0 0 46 20 43% [T19R,T95I,E156G,F157-,R158-,W258L,K417N,L452R,T478K,D614G,P681R,D950N]
F.R..I....I..D.G--...................N............ 46 42 4 0 0 0 0 0 46 41 89% [L5F,T19R,T29I,T95I,G142D,E156G,F157-,R158-,L452R,T478K,A520S,D614G,P681R,D950N]
..R..........D.G--...........H.H.....N............ 46 0 0 46 0 0 0 0 46 45 97% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,Q677H,P681R,D950N] Delta+FurinRelated
..R....SF.I..D.G--...................N............ 46 45 1 0 0 0 0 0 46 46 100% [T19R,A67S,V70F,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R............G--..............S....N............ 45 0 19 26 0 0 0 0 45 35 77% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P809S,D950N] Delta
..R..........DHG--...................N............ 45 3 23 19 0 0 0 0 45 32 71% [T19R,G142D,Y145H,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--.V.......A.........N............ 45 0 34 1 0 10 0 0 45 31 68% [T19R,G142D,E156G,F157-,R158-,G181V,L452R,T478K,E484A,D614G,P681R,D950N]
..R...F...I...HG--...V...............N............ 45 16 28 1 0 0 0 0 45 40 88% [T19R,V36F,T95I,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] Delta+Y145H,A222V
F.R..........D.G--...............L...N............ 45 42 1 2 0 0 0 0 45 45 100% [L5F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812L,D950N] Delta
..RS.........D.G--...................N...Y........ 45 0 0 45 0 0 0 0 45 43 95% [T19R,P26S,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,H1101Y] Delta
F.R.......I..D.G--........V..........N............ 44 35 9 0 0 0 0 0 44 31 70% [L5F,T19R,T95I,G142D,E156G,F157-,R158-,A262S,G446V,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I....G--...........H.......N............ 44 9 14 7 2 0 10 2 44 37 84% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N]
..I.......I..D.G--...................N............ 44 35 5 0 3 0 0 1 44 32 72% [T19I,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..........I..D.G--...................N............ 44 10 13 21 0 0 0 0 44 35 79% [T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R.......I..D.G--.....H.............N............ 44 7 0 37 0 0 0 0 44 42 95% [T19R,T95I,G142D,E156G,F157-,R158-,P251H,L452R,T478K,D614G,P681R,D950N]
..R............G--...................N........V... 43 3 10 29 0 0 1 0 43 37 86% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1219V] Delta
..R............G--.V.......A.........N............ 43 0 43 0 0 0 0 0 43 42 97% [T19R,E156G,F157-,R158-,G181V,L452R,T478K,E484A,D614G,P681R,D950N]
......................--............N............. 42 0 0 0 0 0 42 0 42 16 38% [G75V,T76I,R246N,S247-,Y248-,L249-,T250-,P251-,G252-,D253-,L452Q,F490S,D614G,T859N] Lambda
..R.......I...HG--...V...............N...........L 42 33 6 3 0 0 0 0 42 24 57% [T19R,T95I,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] Delta+Y145H,V1264L
..R............G--...............L...N............ 41 5 14 19 2 0 1 0 41 33 80% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812L,D950N] Delta
..R............G--......L............N............ 41 0 11 22 1 0 7 0 41 35 85% [T19R,E156G,F157-,R158-,W258L,L452R,T478K,D614G,P681R,D950N]
..R............G--..Y................N............ 41 0 5 28 2 1 5 0 41 29 70% [T19R,E156G,F157-,R158-,D215Y,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--G..................N............ 41 0 0 41 0 0 0 0 41 39 95% [T19R,G142D,E156G,F157-,R158-,E180G,L452R,T478K,D614G,P681R,D950N] Delta
.FR..........D.G--...V.......H.......N............ 40 0 1 39 0 0 0 0 40 28 70% [L18F,T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,Q613H,D614G,P681R,D950N] Delta+T95_,A222V
..R............G--...V...I........................ 39 0 0 39 0 0 0 0 39 32 82% [T19R,E156G,F157-,R158-,A222V,V289I,L452R,T478K,D614G,P681R]
..R.......I..D.G--.V...........H.....N............ 39 26 13 0 0 0 0 0 39 31 79% [T19R,T95I,G142D,E156G,F157-,R158-,G181V,L452R,T478K,D614G,Q677H,P681R,D950N] Delta+FurinRelated
..R............G--...................N.........I.. 39 0 8 29 1 0 1 0 39 29 74% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,M1237I] Delta
..R.......I....G--.........Q.........N....L....... 39 1 29 7 0 2 0 0 39 35 89% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R,D950N,V1104L] Delta+E484Q
..R..A.......D.G--....I.L....H.......N............ 39 0 39 0 0 0 0 0 39 30 76% [T19R,T29A,G142D,E156G,F157-,R158-,T250I,W258L,T299I,L452R,T478K,Q613H,D614G,P681R,D950N]
I.R..........D.G--...................N............ 39 0 0 39 0 0 0 0 39 36 92% [L5I,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..RS......I....G--...................N............ 38 4 23 11 0 0 0 0 38 16 42% [T19R,P26S,L54F,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R............G--...................NV........... 38 0 27 6 0 0 5 0 38 31 81% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1020V] Delta
..R............................................... 38 0 33 0 0 0 5 0 38 19 50% [T19R,L452R,T478K,D614G,P681R]
F.R.......I..D.G--.................L.N............ 38 0 38 0 0 0 0 0 38 22 57% [L5F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,I850L,D950N] Delta
..R.......I..D.G--....N..............N............ 37 37 0 0 0 0 0 0 37 28 75% [T19R,T95I,G142D,E156G,F157-,R158-,T250N,L452R,T478K,N532S,D614G,A653V,P681R,D950N]
..R.......I....G--...................N........V... 37 3 6 2 2 0 24 0 37 21 56% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1219V] Delta
..R.....L....D.G--...V........K......N............ 37 0 37 0 0 0 0 0 37 37 100% [T19R,V70L,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,Q675K,P681R,D950N]
.FR..........D.G--...V...............N...........L 37 18 6 13 0 0 0 0 37 17 45% [N17K,L18F,T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,P499R,D614G,P681R,D950N,V1264L] Delta+V1264L
..R.......I....G--Q..V...............N............ 36 0 36 0 0 0 0 0 36 36 100% [T19R,T95I,E156G,F157-,R158-,E180Q,A222V,L452R,T478K,D614G,P681R,D950N]
F.R............G--................................ 36 0 10 20 0 0 6 0 36 29 80% [L5F,T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R]
..R............G--.........A.........N............ 36 0 33 1 1 0 1 0 36 34 94% [T19R,E156G,F157-,R158-,L452R,T478K,E484A,D614G,P681R,D950N]
..R.....I......G--................................ 36 0 1 35 0 0 0 0 36 19 52% [T19R,V70I,E156G,F157-,R158-,L452R,T478K,D614G,P681R]
F.R..........D.G--...V...............N...........L 36 0 1 35 0 0 0 0 36 20 55% [L5F,T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] Delta+V1264L
..R.......I....G--..Y................N............ 36 2 13 16 4 0 1 0 36 26 72% [T19R,T95I,E156G,F157-,R158-,D215Y,L452R,T478K,D614G,P681R,D950N] Delta
.................................................. 35 1 16 15 1 2 0 0 35 8 22% [D614G]
..RS......I....G--...................N...Y........ 35 0 34 0 0 0 0 1 35 34 97% [T19R,P26S,L54F,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,H1101Y] Delta
..R..........D.G--...................N......W..... 35 1 0 34 0 0 0 0 35 31 88% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,L1141W] Delta
F.R.......I....G--.................L.N............ 35 1 34 0 0 0 0 0 35 27 77% [L5F,T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,I850L,D950N] Delta
..R...F...I..DHG--...V...............N.......S.... 35 35 0 0 0 0 0 0 35 32 91% [T19R,V36F,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,P1162S] Delta+Y145H,A222V
..R............G--......R............N............ 34 0 32 2 0 0 0 0 34 10 29% [T19R,E156G,F157-,R158-,W258R,L452R,T478K,D614G,P681R,D950N]
.FR.......I..D.G--...................N..........Y. 34 3 31 0 0 0 0 0 34 30 88% [L18F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1259Y] Delta
..R..........D.G--....I..............N............ 34 5 11 18 0 0 0 0 34 18 52% [T19R,G142D,E156G,F157-,R158-,T250I,L452R,T478K,D614G,P681R,D950N]
F.R............G--...V...I...........N............ 34 0 0 34 0 0 0 0 34 29 85% [L5F,T19R,E156G,F157-,R158-,A222V,V289I,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V,V289I
..R.......I..D.G--.V.................N...........A 34 34 0 0 0 0 0 0 34 31 91% [T19R,T95I,G142D,E156G,F157-,R158-,G181V,L452R,T478K,D614G,P681R,D950N,V1264A]
..R.......I..D.G--.....T.............N....L....... 34 0 0 34 0 0 0 0 34 33 97% [T19R,T95I,G142D,E156G,F157-,R158-,P251T,L452R,T478K,D614G,P681R,D950N,V1104L]
..R.......I..DHG--.V.V...............N............ 33 33 0 0 0 0 0 0 33 25 75% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,G181V,A222V,L452R,T478K,D614G,P681R,D950N,L1049I,M1233I] Delta+Y145H,A222V
F.R............G--..Y................N............ 33 0 33 0 0 0 0 0 33 29 87% [L5F,T19R,E156G,F157-,R158-,D215Y,L452R,T478K,D614G,P681R,D950N,G1167V] Delta
F.R.......I..DHG--...V...............N...........L 33 33 0 0 0 0 0 0 33 13 39% [L5F,T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] Delta+Y145H,V1264L
..R..........D.G--...................N..T......... 33 1 0 32 0 0 0 0 33 22 66% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1078T] Delta
..R.......I..DHG--...V...............N.....V...... 33 31 2 0 0 0 0 0 33 19 57% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,G1124V] Delta+Y145H,A222V
..R.......I..D.G--.R.................N............ 33 18 11 4 0 0 0 0 33 30 90% [T19R,T95I,G142D,E156G,F157-,R158-,G181R,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I....G--.........A.........N............ 32 1 6 25 0 0 0 0 32 25 78% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,E484A,D614G,P681R,D950N]
..R.......I..D.G--...................N.......A.... 32 2 0 0 0 0 0 30 32 28 87% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162A] Delta
.FR.......I..D.G--...................N.....V...... 32 32 0 0 0 0 0 0 32 32 100% [L18F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1124V] Delta
F.R.......I..DHG--...V...............N.......S.... 32 20 12 0 0 0 0 0 32 30 93% [L5F,T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,Q779E,D950N,P1162S] Delta+Y145H,A222V
..R..........D.G--.A.................N............ 32 2 11 19 0 0 0 0 32 25 78% [T19R,G142D,E156G,F157-,R158-,G181A,L452R,T478K,D614G,P681R,D950N] Delta
.FR.......I..D.G--...................N......F..... 32 32 0 0 0 0 0 0 32 14 43% [L18F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,L1141F] Delta
..R....S.......G--...................N............ 32 2 24 5 0 0 1 0 32 26 81% [T19R,A67S,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..................V...............N............ 31 0 2 6 23 0 0 0 31 19 61% [T19R,A222V,L452R,T478K,D614G,P681R,D950N]
..R.......I........................L.N............ 31 0 31 0 0 0 0 0 31 18 58% [T19R,T95I,L452R,T478K,D614G,P681R,I850L,D950N]
..R.......I..D.G--..............S..L.N............ 31 1 30 0 0 0 0 0 31 29 93% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P809S,I850L,D950N] Delta
..R.......I....G--.................L.N...........L 31 1 29 0 1 0 0 0 31 28 90% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,I850L,D950N,V1264L] Delta+V1264L
..R............G--...................N.........V.. 31 0 25 6 0 0 0 0 31 29 93% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,M1237V] Delta
..R.......I..DHG--...V....S..........N............ 31 31 0 0 0 0 0 0 31 30 96% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,G446S,L452R,T478K,D614G,P681R,D950N] Delta+Y145H,A222V
..R..........D.G--...V.......HH......N............ 31 0 0 31 0 0 0 0 31 31 100% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,Q613H,D614G,Q675H,P681R,D950N] Delta+FurinRelated
..R............G--..H................N............ 30 0 5 25 0 0 0 0 30 14 46% [T19R,E156G,F157-,R158-,D215H,L452R,T478K,D614G,P681R,D950N] Delta
..R.....F.I....G--...................N............ 30 6 19 4 0 0 1 0 30 28 93% [T19R,V70F,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R.......I..D.V--..............L....N............ 30 30 0 0 0 0 0 0 30 24 80% [T19R,T95I,G142D,E156V,F157-,R158-,L452R,T478K,D614G,P681R,P809L,D950N]
F.R.......I..D.G--..............S....N............ 30 0 1 29 0 0 0 0 30 20 66% [L5F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P809S,D950N] Delta
..R.......I..DHG--...V...............N........V... 30 23 7 0 0 0 0 0 30 28 93% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,G1219V] Delta+Y145H,A222V
..R...I......D.G--...................N..S......... 30 30 0 0 0 0 0 0 30 29 96% [T19R,V36I,G142D,E156G,F157-,R158-,D253G,L452R,T478K,D614G,P681R,D950N,A1078S] Delta
..R............G--.....L.......................... 29 0 24 5 0 0 0 0 29 23 79% [T19R,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R]
..R....V.....D.G--...V.......H.......N............ 29 0 3 26 0 0 0 0 29 25 86% [T19R,A67V,G142D,E156G,F157-,R158-,A222V,L452R,T478K,Q613H,D614G,P681R,D950N] Delta+T95_,A222V
..R..........D.G--...V............................ 29 0 8 0 20 0 1 0 29 25 86% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R]
..R.......I....G--...V.............L.N............ 29 0 29 0 0 0 0 0 29 27 93% [T19R,T95I,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,I850L,D950N]
..R..........D.G--.V.................N..........Y. 29 17 11 0 0 0 1 0 29 21 72% [T19R,G142D,E156G,F157-,R158-,G181V,L452R,T478K,D614G,P681R,D950N,D1259Y] Delta
..R..........D.G--.......L.....H.....N............ 29 0 0 29 0 0 0 0 29 27 93% [T19R,G142D,E156G,F157-,R158-,V289L,L452R,T478K,D614G,Q677H,P681R,D950N] Delta+FurinRelated
..R............G--........V..H.......N............ 29 0 29 0 0 0 0 0 29 29 100% [T19R,E156G,F157-,R158-,G446V,L452R,T478K,Q613H,D614G,S640F,P681R,D950N]
..R....V..I..DHG--...V...............N............ 29 29 0 0 0 0 0 0 29 28 96% [T19R,A67V,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] Delta+Y145H,A222V
..R.....I....D.G--.............H.....N............ 28 0 0 28 0 0 0 0 28 27 96% [T19R,V70I,G142D,E156G,F157-,R158-,M177I,L452R,T478K,D614G,Q677H,P681R,D950N]
..R..........D.......................N...........L 28 0 4 0 23 1 0 0 28 14 50% [T19R,G142D,L452R,T478K,D614G,P681R,D950N,V1264L]
F.R..........D.G--...V...I...........N............ 28 0 1 27 0 0 0 0 28 23 82% [L5F,T19R,G142D,E156G,F157-,R158-,A222V,V289I,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V,V289I
..R.......I..D.G--..............S....NS........... 28 0 0 28 0 0 0 0 28 25 89% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P809S,D950N,A1020S] Delta
..R............G--............H......N............ 28 0 8 16 1 0 3 0 28 27 96% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,Q675H,P681R,D950N] Delta+FurinRelated
..R.......I....G--...................N......F..... 28 14 5 9 0 0 0 0 28 20 71% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,L1141F] Delta
..R..........D.G--...................N.........V.. 28 2 10 15 1 0 0 0 28 24 85% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,M1237V] Delta
..R.......I..DHG--...V...............N........C... 28 23 5 0 0 0 0 0 28 25 89% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,G1219C] Delta+Y145H,A222V
.FR.......I..D.G--.E.................N............ 28 28 0 0 0 0 0 0 28 28 100% [L18F,T19R,T95I,G142D,E156G,F157-,R158-,G181E,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--...................N.....V.....L 28 0 27 0 1 0 0 0 28 28 100% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1124V,V1264L] Delta+V1264L
..R.......IL.D.G--...................N............ 28 5 3 20 0 0 0 0 28 22 78% [T19R,T95I,S112L,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta+S112L
..R.....F.I..D.G--...................N...Y........ 28 28 0 0 0 0 0 0 28 28 100% [T19R,V70F,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,H1101Y]
..R.......V..D.G--...................N............ 28 20 2 6 0 0 0 0 28 28 100% [T19R,T95V,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R............G--...V.......H.......N............ 27 0 10 6 11 0 0 0 27 10 37% [T19R,E156G,F157-,R158-,A222V,L452R,T478K,Q613H,D614G,P681R,D950N] Delta+T95_,A222V
..R.......I..D.G--.A.................N............ 27 20 6 0 1 0 0 0 27 14 51% [T19R,T95I,G142D,E156G,F157-,R158-,G181A,V367I,L452R,T478K,D614G,P681R,D950N] Delta
F.R.......I..D.G--...................N......F..... 27 20 7 0 0 0 0 0 27 26 96% [L5F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,L1141F] Delta
..R.......I..D.G--........S..........N............ 27 11 7 8 1 0 0 0 27 23 85% [T19R,T95I,G142D,E156G,F157-,R158-,G446S,L452R,T478K,D614G,P681R,D950N] Delta
.FR........L.D.G--...................N............ 27 1 0 26 0 0 0 0 27 22 81% [L18F,T19R,S112L,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta+S112L
F.R........L...G--...................N............ 27 0 0 27 0 0 0 0 27 22 81% [L5F,T19R,S112L,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta+S112L
..R..........D.G--...................N......F..... 27 22 0 5 0 0 0 0 27 25 92% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,L1141F] Delta
..R.V..........G--...................N............ 27 0 6 14 3 0 4 0 27 26 96% [T19R,A27V,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--...................N..V......... 27 10 0 17 0 0 0 0 27 11 40% [T19R,T95I,G142D,E156G,F157-,R158-,A262G,L452R,T478K,D614G,P681R,D950N,A1078V] Delta
..R.......I.HD.G--V..................N............ 27 0 27 0 0 0 0 0 27 25 92% [T19R,T95I,D138H,G142D,E156G,F157-,R158-,E180V,L452R,T478K,D614G,P681R,D950N,I1114T] Delta
..R.......I..DHG--..YV...............N............ 27 27 0 0 0 0 0 0 27 11 40% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,D215Y,A222V,L452R,T478K,D614G,P681R,D950N] Delta+Y145H,A222V
..RR.........D.G--...................N............ 27 0 0 27 0 0 0 0 27 21 77% [T19R,P26R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--..................NN............ 26 1 16 8 1 0 0 0 26 19 73% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T859N,D950N] Delta
..R.......I.HD.G--..............Q....N............ 26 26 0 0 0 0 0 0 26 19 73% [T19R,T95I,D138H,G142D,E156G,F157-,R158-,L452R,T478K,A522S,D614G,P681R,P809Q,D950N] Delta
..R............G--...V.........H.....N............ 26 0 15 8 3 0 0 0 26 22 84% [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,Q677H,P681R,D950N] Delta+FurinRelated
..R.......I..D.G--..............L....N............ 26 15 1 2 0 0 0 8 26 25 96% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P809L,D950N] Delta
F.R..........D.G--..........I........N............ 26 0 9 17 0 0 0 0 26 25 96% [L5F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,T572I,D614G,P681R,D950N] Delta
..R.....I......G--.............H.....N............ 26 0 0 26 0 0 0 0 26 25 96% [T19R,V70I,E156G,F157-,R158-,M177I,L452R,T478K,D614G,Q677H,P681R,D950N]
..R..........D.G--...V...............N.T.......... 26 4 22 0 0 0 0 0 26 23 88% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,K1073T] Delta+T95_,A222V
..R..........D.G--..............L....N............ 26 2 2 22 0 0 0 0 26 22 84% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P809L,D950N] Delta
..R.......I..DHG--...V....V..........N............ 26 25 1 0 0 0 0 0 26 18 69% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,G446V,L452R,T478K,D614G,P681R,D950N] Delta+Y145H,A222V
..R.......I..D.G--..............L....N...........L 26 26 0 0 0 0 0 0 26 26 100% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P809L,D950N,V1264L] Delta+V1264L
..R......YI....G--...................N............ 25 4 8 8 5 0 0 0 25 15 60% [T19R,D80Y,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--.E.V...............N............ 25 0 25 0 0 0 0 0 25 15 60% [T19R,G142D,E156G,F157-,R158-,G181E,A222V,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V
..R.......I..D.G--........................L....... 25 0 5 15 1 0 4 0 25 10 40% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,V1104L]
..R.......I..D.G--.............H....IN..........H. 25 0 5 20 0 0 0 0 25 18 72% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,T859I,D950N,D1259H] Delta+FurinRelated
..R.......I..D.G--............R......N............ 25 24 0 1 0 0 0 0 25 13 52% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q675R,P681R,A688V,D950N] Delta+FurinRelated
..R.......I....G--............................C... 25 0 24 1 0 0 0 0 25 23 92% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,Q787K,G1219C]
..R.......I..D.G--.................V.N............ 25 24 1 0 0 0 0 0 25 22 88% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,I850V,D950N] Delta
..RLS.....I..D.G--...................N............ 25 25 0 0 0 0 0 0 25 18 72% [T19R,P26L,A27S,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--..E................N............ 25 1 0 24 0 0 0 0 25 23 92% [T19R,T95I,G142D,E156G,F157-,R158-,D215E,L452R,T478K,D614G,P681R,D950N] Delta
..R........L.D.G--...................N....L....... 25 0 0 25 0 0 0 0 25 25 100% [T19R,S112L,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] Delta+S112L
..R..........D.G--......F............N............ 25 0 0 25 0 0 0 0 25 25 100% [T19R,G142D,E156G,F157-,R158-,W258F,L452R,T478K,D614G,P681R,D950N]
..R............G--...................N..........E. 24 0 23 1 0 0 0 0 24 23 95% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1259E] Delta
..R............G--...................N..........Y. 24 0 20 4 0 0 0 0 24 21 87% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1259Y] Delta
..R............G--...................N.......S.... 24 0 10 11 0 0 3 0 24 17 70% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162S] Delta
F.R.......I..D.G--.V.................N............ 24 1 23 0 0 0 0 0 24 24 100% [L5F,T19R,T95I,G142D,E156G,F157-,R158-,G181V,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I....G--..............S................. 24 0 0 24 0 0 0 0 24 20 83% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P809S]
..R..........D.G--...................N........S... 24 5 10 9 0 0 0 0 24 23 95% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1219S] Delta
..R.......I..D.G--...................N........S... 24 23 0 1 0 0 0 0 24 21 87% [T19R,T95I,G142D,E156G,F157-,R158-,R408I,L452R,T478K,D614G,P681R,D950N,G1219S] Delta
..R.......I..D.G--...P...............N............ 24 8 3 13 0 0 0 0 24 19 79% [T19R,T95I,G142D,E156G,F157-,R158-,A222P,L452R,T478K,D614G,P681R,D950N]
F.R.......I..D.G--...................N....L....... 23 4 2 17 0 0 0 0 23 7 30% [L5F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] Delta
........-..................K...................... 23 0 1 0 22 0 0 0 23 10 43% [H69-,V70-,Y144-,E484K,N501Y,A570D,D614G,P681H,T716I,S982A,D1118H] Alpha+E484K
............---.....................N............. 23 0 22 1 0 0 0 0 23 12 52% [P9L,E96Q,C136-,N137Y,D138-,P139-,F140-,L141-,G142-,V143-,Y144-,Y145-,R190S,I210T,R346S,N394S,Y449N,F490R,N501Y,D614G,P681H,T859N,D936H]
..R..........D.G--.....L.............N..S......... 23 0 23 0 0 0 0 0 23 19 82% [T19R,G142D,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R,D950N,A1078S] Delta+T95_,P251L
F.R.......I..D.G--................S..N............ 23 23 0 0 0 0 0 0 23 21 91% [L5F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,P479S,D614G,P681R,A845S,D950N] Delta
F.R..........D.G--.....L.............N............ 23 8 9 6 0 0 0 0 23 11 47% [L5F,T19R,G142D,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R,D950N] Delta+T95_,P251L
..R....V.....D.G--...V...............N...........L 23 0 0 23 0 0 0 0 23 15 65% [T19R,A67V,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] Delta+V1264L
..R.......I..D.G--.................L.N..........H. 23 0 23 0 0 0 0 0 23 15 65% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,I850L,D950N,D1259H] Delta
..R..........D.G--.........K.........N............ 23 10 9 3 0 1 0 0 23 17 73% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,E484K,D614G,P681R,D950N]
..R..........D.G--...V..L............N............ 23 1 6 16 0 0 0 0 23 11 47% [T19R,G142D,E156G,F157-,R158-,A222V,W258L,L452R,T478K,D614G,P681R,D950N]
-.R.......I..D.G--...................N............ 23 0 22 1 0 0 0 0 23 9 39% [L5-,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R............G--.........Q........NN............ 23 0 23 0 0 0 0 0 23 23 100% [T19R,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R,V687I,T859N,D950N] Delta+E484Q
..R.......I..D.G--...................N.....C...... 23 5 17 1 0 0 0 0 23 23 100% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1124C] Delta
..R..........D.G--.V....R............N............ 23 0 23 0 0 0 0 0 23 12 52% [T19R,G142D,E156G,F157-,R158-,G181V,W258R,L452R,T478K,D614G,P681R,D950N,S1242I]
..R........L.D.G--........V..........N............ 22 0 0 22 0 0 0 0 22 18 81% [T19R,S112L,G142D,E156G,F157-,R158-,G446V,L452R,T478K,D614G,P681R,D950N] Delta+S112L
..R.......I..D.G--.V.................N....L....... 22 1 9 12 0 0 0 0 22 11 50% [T19R,T95I,G142D,E156G,F157-,R158-,G181V,L452R,T478K,D614G,P681R,D950N,V1104L] Delta
..R..........D.G--...................N..V......... 22 5 3 13 0 0 1 0 22 17 77% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1078V] Delta
..R............G--K..................N............ 22 0 0 22 0 0 0 0 22 16 72% [T19R,E156G,F157-,R158-,E180K,L452R,T478K,D614G,P681R,D950N] Delta
..R.....-....D.G--..N................N...........L 22 0 0 0 22 0 0 0 22 15 68% [T19R,H69-,V70-,G142D,E156G,F157-,R158-,D215N,L452R,T478K,D614G,P681R,D950N,V1264L]
..R..........D-G--...................N............ 22 1 3 12 6 0 0 0 22 9 40% [T19R,G142D,V143-,Y144-,Y145-,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..A.......D.G--....I..............N.........I.. 22 22 0 0 0 0 0 0 22 22 100% [T19R,T29A,G142D,E156G,F157-,R158-,T250I,L452R,T478K,D614G,P681R,D950N,M1237I] Delta+T29A,T95_,T250I
..R............G--...V.......H.......N...........L 22 0 15 6 0 0 1 0 22 17 77% [T19R,E156G,F157-,R158-,A222V,L452R,T478K,Q613H,D614G,P681R,D950N,N1074S,V1264L] Delta+N1074S,V1264L
..R.......I..DHG--...V...............N.....V.....L 22 22 0 0 0 0 0 0 22 22 100% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,G1124V,V1264L] Delta+Y145H,V1264L
..R.......I....G--..................NN............ 22 2 10 7 3 0 0 0 22 20 90% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T859N,D950N] Delta
F.R.....F.I..D.G--...................N............ 22 22 0 0 0 0 0 0 22 22 100% [L5F,T19R,V70F,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R......Y...D.G--......R............N..S......... 22 22 0 0 0 0 0 0 22 21 95% [T19R,D80Y,G142D,E156G,F157-,R158-,W258R,L452R,T478K,D614G,P681R,D950N,A1078S]
..R..........D.G--...V.........H.....N............ 21 1 17 3 0 0 0 0 21 15 71% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,Q677H,P681R,D950N] Delta+FurinRelated
..R..A.......D.G--....I......H.......N..........H. 21 0 21 0 0 0 0 0 21 8 38% [T19R,T29A,G142D,E156G,F157-,R158-,T250I,T299I,L452R,T478K,V511I,Q613H,D614G,P681R,D950N,D1259H] Delta+T29A,T95_,T250I,T299I,Q613H
..R............G--...........H.................... 21 0 9 11 0 0 1 0 21 11 52% [T19R,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R]
..R.......I..DHG--...V...........L...N............ 21 19 2 0 0 0 0 0 21 10 47% [T19R,R21T,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,P812L,D950N] Delta+Y145H,A222V
..R........F.D.G--...................N............ 21 0 0 21 0 0 0 0 21 9 42% [T19R,S112F,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,G838S,D950N]
F.R..........D.G--...................N........V... 21 10 11 0 0 0 0 0 21 13 61% [L5F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1219V] Delta
..R.......I..D.G--G..................N....L....... 21 0 0 21 0 0 0 0 21 19 90% [T19R,T95I,G142D,E156G,F157-,R158-,E180G,L452R,T478K,D614G,P681R,D950N,V1104L] Delta
..R.......I....G--...................N........C... 21 1 7 12 1 0 0 0 21 13 61% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1219C] Delta
..R.......I....G--...........H.....L.N............ 21 0 21 0 0 0 0 0 21 20 95% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,I850L,D950N]
F.R............G--...V...............N............ 21 0 12 3 6 0 0 0 21 16 76% [L5F,T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V
..R.......I....G--..................IN............ 21 2 4 11 3 0 0 1 21 12 57% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,T859I,D950N] Delta
..R.......I....G--.........K.........N............ 21 4 13 1 2 0 0 1 21 13 61% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,E484K,D614G,P681R,D950N]
..R.......I..DHG--...V...L...........N............ 21 21 0 0 0 0 0 0 21 21 100% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,V289L,L452R,T478K,D614G,P681R,D950N] Delta+Y145H,A222V
..R..........D.G--...V...............NS..........L 21 0 0 21 0 0 0 0 21 18 85% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,A1020S,V1264L] Delta+V1264L
..R.........VD.G--...................N............ 21 0 21 0 0 0 0 0 21 18 85% [T19R,D138V,G142D,E156G,F157-,R158-,T323K,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--.......L...........N............ 20 12 3 5 0 0 0 0 20 11 55% [T19R,G142D,E156G,F157-,R158-,V289L,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--.V.................N..........H. 20 0 20 0 0 0 0 0 20 16 80% [T19R,G142D,E156G,F157-,R158-,G181V,L452R,T478K,D614G,P681R,D950N,D1259H] Delta
..R.......I..D.G--.........Q...H.....N............ 20 7 11 2 0 0 0 0 20 19 95% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,Q677H,P681R,D950N] Delta+FurinRelated
..R.......I..D.G--...................N...N........ 20 20 0 0 0 0 0 0 20 18 90% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,H1101N] Delta
..R.......I....G--............H................... 20 0 0 20 0 0 0 0 20 14 70% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,Q675H,P681R]
..R....V..I....G--...................N............ 20 5 4 7 4 0 0 0 20 18 90% [T19R,A67V,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--.V..........H......N............ 20 0 0 20 0 0 0 0 20 19 95% [T19R,T95I,G142D,E156G,F157-,R158-,G181V,L452R,T478K,D614G,Q675H,P681R,D950N] Delta+FurinRelated
..R.......I..DHG--...V........R......N............ 20 20 0 0 0 0 0 0 20 17 85% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,Q675R,P681R,D950N] Delta+FurinRelated
..R.....I....D.G--...................N..........Y. 20 3 0 17 0 0 0 0 20 19 95% [T19R,V70I,G142D,E156G,F157-,R158-,M177I,L452R,T478K,D614G,P681R,D950N,D1259Y]
..R.......I..D.G--..........N......L.N............ 20 1 19 0 0 0 0 0 20 20 100% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,T572N,D614G,P681R,I850L,D950N] Delta
..R.......I..D.G--.............H.....NS........... 20 19 1 0 0 0 0 0 20 17 85% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,E583D,D614G,Q677H,P681R,D950N,A1020S,I1132V] Delta+FurinRelated
F.R.......I..D.G--VV.................N............ 20 20 0 0 0 0 0 0 20 19 95% [L5F,T19R,T95I,G142D,E156G,F157-,R158-,E180V,G181V,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--.........Q........NN............ 20 1 19 0 0 0 0 0 20 18 90% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R,V687I,T859N,D950N] Delta+E484Q
..R.....G.I..D.G--...................N............ 20 12 8 0 0 0 0 0 20 12 60% [T19R,V70G,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
F.R............G--...V...............N...........L 19 0 1 18 0 0 0 0 19 14 73% [L5F,T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] Delta+V1264L
..R............G--...................N.......R.... 19 0 0 19 0 0 0 0 19 18 94% [T19R,E156G,F157-,R158-,Q173H,L452R,T478K,D614G,P681R,D950N,P1162R] Delta
F.R.......I....G--...................N....L....... 19 0 0 18 0 0 1 0 19 10 52% [L5F,T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] Delta
..R.......I....G--.............H....IN............ 19 1 17 0 0 0 1 0 19 10 52% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,T859I,D950N] Delta+FurinRelated
..R.......I..D.G--..............S....N........C... 19 19 0 0 0 0 0 0 19 15 78% [T19R,T95I,G142D,E156G,F157-,R158-,K417N,L452R,T478K,D614G,P681R,P809S,D950N,G1219C]
..R..........D.G--.V....R....H.......N............ 19 0 19 0 0 0 0 0 19 16 84% [T19R,G142D,E156G,F157-,R158-,G181V,W258R,L452R,T478K,Q613H,D614G,P681R,D950N,S1242I]
..R..........D.G--...................N.T.......... 19 0 0 19 0 0 0 0 19 18 94% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1073T] Delta
..R..........D.G--...V..........S....N...........L 19 0 0 19 0 0 0 0 19 19 100% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,P809S,D950N,V1264L] Delta+V1264L
..R.V........D.G--.....L.............N............ 19 0 9 10 0 0 0 0 19 14 73% [T19R,A27V,G142D,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R,D950N] Delta+T95_,P251L
..R.......I..D.G--...................N.....S...... 19 18 0 1 0 0 0 0 19 18 94% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1124S] Delta
..R...F...I.HDHG--...V...............N............ 19 19 0 0 0 0 0 0 19 18 94% [T19R,V36F,T95I,D138H,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] Delta+Y145H,A222V
..I............G--...................N............ 18 0 0 18 0 0 0 0 18 15 83% [T19I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
-.R..........D.G--...................N............ 18 0 18 0 0 0 0 0 18 15 83% [L5-,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R............G--........S..........N............ 18 0 2 15 0 0 1 0 18 9 50% [T19R,E156G,F157-,R158-,G446S,L452R,T478K,D614G,P681R,D950N] Delta
.FR..........D.G--...V...............N............ 18 0 1 17 0 0 0 0 18 18 100% [L18F,T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V
..R.......I....G--..............S..L.N............ 18 0 18 0 0 0 0 0 18 18 100% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P809S,I850L,D950N] Delta
..R............G--................S............... 18 0 15 2 1 0 0 0 18 14 77% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A845S]
F.R..........D.G--............H......N............ 18 0 0 18 0 0 0 0 18 18 100% [L5F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q675H,P681R,D950N] Delta+FurinRelated
..R.......I.HD.G--...................N....L....... 18 1 0 17 0 0 0 0 18 15 83% [T19R,T95I,K97E,D138H,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L] Delta
..R............G--......................S......... 18 0 14 4 0 0 0 0 18 10 55% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A1078S]
..R..........D.G--...V.....Q.........N............ 18 1 15 0 2 0 0 0 18 9 50% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,E484Q,D614G,P681R,D950N] Delta+T95_,A222V
..R.......I....G--...............S...N............ 18 2 5 9 2 0 0 0 18 15 83% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812S,D950N] Delta
..R...........HG--...................N............ 18 0 8 7 3 0 0 0 18 11 61% [T19R,Y145H,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--...V....V..........N............ 18 1 8 6 3 0 0 0 18 12 66% [T19R,G142D,E156G,F157-,R158-,A222V,G446V,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V
..R..........D.G--...........H.......NS........... 18 1 13 0 4 0 0 0 18 13 72% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N,A1020S]
..R.......I..DHG--...V.......H.......N...........L 18 18 0 0 0 0 0 0 18 17 94% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,Q613H,D614G,P681R,D950N,V1264L] Delta+Y145H,V1264L
..RH......I....G--...................N............ 18 0 18 0 0 0 0 0 18 18 100% [T19R,P26H,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..DHG--...V...............NS........... 18 17 1 0 0 0 0 0 18 14 77% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,A1020S] Delta+Y145H,A222V
-.R.......I..DHG--...V...............N.......S.... 18 0 18 0 0 0 0 0 18 18 100% [L5-,T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,Q779E,D950N,V1122L,P1162S] Delta+Y145H,A222V
..R............G--..E................N............ 18 0 0 18 0 0 0 0 18 17 94% [T19R,E156G,F157-,R158-,Q183Y,D215E,A352S,L452R,T478K,D614G,P681R,D950N] Delta
.FR..A....I..D.G--...................N..........Y. 18 0 18 0 0 0 0 0 18 17 94% [N17K,L18F,T19R,T29A,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1259Y]
..R............G--..G................N............ 17 0 1 16 0 0 0 0 17 15 88% [T19R,E156G,F157-,R158-,D215G,L452R,T478K,D614G,P681R,D950N] Delta
..R..A.......D.G--....I..............N.......L.... 17 0 17 0 0 0 0 0 17 14 82% [T19R,T29A,G142D,E156G,F157-,R158-,P174S,T250I,L452R,T478K,D614G,P681R,D950N,P1162L] Delta+T29A,T95_,T250I
..R............G--.................L.N............ 17 1 16 0 0 0 0 0 17 12 70% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,I850L,D950N] Delta
..R.........Y..G--...................N............ 17 0 0 2 0 0 15 0 17 10 58% [T19R,D138Y,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I....G--...............L...N............ 17 4 6 7 0 0 0 0 17 10 58% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812L,D950N] Delta
..R............G--.............H.................. 17 0 7 10 0 0 0 0 17 14 82% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R]
..R.......I..D.G--.........D.........N............ 17 9 2 4 0 0 2 0 17 15 88% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,E484D,D614G,P681R,D950N]
..R.......I..D.G--...T...............N............ 17 15 1 1 0 0 0 0 17 14 82% [T19R,T95I,G142D,E156G,F157-,R158-,A222T,L452R,T478K,D614G,P681R,D950N]
..R..........D.G--........R..........N............ 17 4 9 3 1 0 0 0 17 9 52% [T19R,G142D,E156G,F157-,R158-,G446R,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--...........H.......N....L....... 17 1 8 8 0 0 0 0 17 14 82% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N,V1104L]
.FR..........D.G--...................N.........I.. 17 17 0 0 0 0 0 0 17 15 88% [L18F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,L938F,D950N,M1237I] Delta
..R..........D.G--...................N.........L.. 17 0 0 17 0 0 0 0 17 17 100% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,M1237L] Delta
..R..........D.G--.....L.......H.....N............ 16 1 15 0 0 0 0 0 16 15 93% [T19R,G142D,E156G,F157-,R158-,P251L,L452R,T478K,D614G,Q677H,P681R,D950N] Delta+FurinRelated
..R.......I..D.G--.............H.....N..........H. 16 0 16 0 0 0 0 0 16 10 62% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N,D1259H] Delta+FurinRelated
..R........L.D.G--...........H.......N............ 16 0 0 16 0 0 0 0 16 15 93% [T19R,S112L,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N] Delta+S112L
.IR........L.D.G--...................N............ 16 0 0 16 0 0 0 0 16 9 56% [L18I,T19R,S112L,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta+S112L
..R.......I..D.G--....S..............N............ 16 16 0 0 0 0 0 0 16 14 87% [T19R,T95I,G142D,E156G,F157-,R158-,T250S,L452R,T478K,D614G,P681R,L938F,D950N]
..RL......I....G--...................N............ 16 0 10 4 2 0 0 0 16 7 43% [T19R,P26L,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R........L.D.G--.........A.........N............ 16 0 0 16 0 0 0 0 16 16 100% [T19R,S112L,G142D,E156G,F157-,R158-,L452R,T478K,E484A,D614G,P681R,D950N]
..R..........D.G--.V...L.............N............ 16 14 2 0 0 0 0 0 16 9 56% [T19R,G142D,E156G,F157-,R158-,G181V,P251L,L452R,T478K,D614G,P681R,D950N] Delta+T95_,P251L
..R......HI..D.G--...................N............ 16 14 1 1 0 0 0 0 16 15 93% [T19R,D80H,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
F.R.......I..D.G--V..................N............ 16 16 0 0 0 0 0 0 16 13 81% [L5F,T19R,T95I,G142D,E156G,F157-,R158-,E180V,L452R,S459F,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--................S..N....L....... 16 7 7 2 0 0 0 0 16 14 87% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A845S,D950N,V1104L] Delta
..I............G--................S..N............ 16 0 16 0 0 0 0 0 16 16 100% [T19I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A845S,D950N,G1167V]
.....................................N....L....... 16 0 0 16 0 0 0 0 16 5 31% [L452R,T478K,D614G,P681R,D950N,V1104L]
..R.........GD.G--...................N............ 16 4 1 11 0 0 0 0 16 11 68% [T19R,D138G,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D...G...................N............ 16 0 16 0 0 0 0 0 16 15 93% [T19R,T95I,G142D,R158G,L452R,T478K,D614G,P681R,D950N]
..R.......I..D.G--...............S.L.N............ 16 0 16 0 0 0 0 0 16 15 93% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812S,I850L,D950N] Delta
..R.....F..L.D.G--...................N............ 16 1 0 15 0 0 0 0 16 14 87% [T19R,V70F,S112L,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta+S112L
..R.......I..DHG--...V...............N..V......... 16 16 0 0 0 0 0 0 16 13 81% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,A1078V] Delta+Y145H,A222V
..R.S........D.G--......R............N............ 16 0 16 0 0 0 0 0 16 13 81% [T19R,A27S,G142D,E156G,F157-,R158-,W258R,L452R,T478K,D614G,V622F,P681R,D950N]
..R....S..I....G--...................N............ 15 0 3 10 2 0 0 0 15 9 60% [T19R,A67S,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..A.......D.G--...................N............ 15 0 7 7 0 0 1 0 15 8 53% [T19R,T29A,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R........L.D.G--...................N.....V...... 15 0 0 15 0 0 0 0 15 9 60% [T19R,S112L,G142D,E156G,F157-,R158-,L452R,T478K,T547I,D614G,P681R,D950N,G1124V] Delta+S112L
..R.......I..D.G--.......I...........N............ 15 10 3 2 0 0 0 0 15 10 66% [T19R,T95I,G142D,E156G,F157-,R158-,V289I,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I....G--...................N.......L.... 15 1 2 12 0 0 0 0 15 11 73% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162L] Delta
..R..........D.G--.......I...........N............ 15 1 6 8 0 0 0 0 15 12 80% [T19R,G142D,E156G,F157-,R158-,V289I,L452R,T478K,D614G,P681R,D950N] Delta
..R...F......D.G--...................N............ 15 0 1 14 0 0 0 0 15 7 46% [T19R,V36F,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R............G--.V.............................. 15 0 11 4 0 0 0 0 15 10 66% [T19R,E156G,F157-,R158-,G181V,L452R,T478K,D614G,P681R]
..R.V...I....D.G--...................N............ 15 0 0 15 0 0 0 0 15 12 80% [T19R,A27V,V70I,G142D,E156G,F157-,R158-,M177I,L452R,T478K,D614G,P681R,D950N]
..R..S....I..D.G--...................N............ 15 3 0 12 0 0 0 0 15 11 73% [T19R,T29S,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
F.R.......I....G--..............S....N............ 15 0 0 15 0 0 0 0 15 12 80% [L5F,T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P809S,D950N] Delta
..R..........D.G--...........H.......N........C... 15 0 1 14 0 0 0 0 15 13 86% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N,G1219C]
.FR.......I..D.G--.................L.N............ 15 3 12 0 0 0 0 0 15 7 46% [L18F,T19R,T95I,G142D,E156G,F157-,R158-,E281Q,L452R,T478K,Y508H,D614G,P681R,I850L,D950N] Delta
..R.......I.....--...................N............ 15 0 0 15 0 0 0 0 15 15 100% [T19R,T95I,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R..........D.G--..E................N............ 15 8 0 7 0 0 0 0 15 8 53% [T19R,G142D,E156G,F157-,R158-,D215E,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--...................N........CI.. 15 15 0 0 0 0 0 0 15 15 100% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,G1219C,M1237I] Delta
..R............G--..YV...............N............ 15 0 0 15 0 0 0 0 15 10 66% [T19R,E156G,F157-,R158-,D215Y,A222V,R237S,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V
..R...F...I..DHG--.A.V...............N............ 15 15 0 0 0 0 0 0 15 14 93% [T19R,V36F,T95I,G142D,Y145H,E156G,F157-,R158-,G181A,A222V,L452R,T478K,D614G,P681R,D950N] Delta+Y145H,A222V
FFR.......I..DHG--...V...............N...........L 15 15 0 0 0 0 0 0 15 14 93% [L5F,L18F,T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,H655Y,P681R,D950N,V1264L] Delta+FurinRelated
..R.......I....G--..G................N............ 14 0 12 2 0 0 0 0 14 9 64% [T19R,T95I,E156G,F157-,R158-,D215G,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--.V.V...............N............ 14 4 6 3 1 0 0 0 14 13 92% [T19R,G142D,E156G,F157-,R158-,G181V,A222V,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V
..R..........D.G--...V...............N..........H. 14 0 14 0 0 0 0 0 14 7 50% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,D1259H] Delta+T95_,A222V
..R..........D.G--...V...............N....L......L 14 0 0 14 0 0 0 0 14 6 42% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1104L,V1264L] Delta+V1264L
..R............G--...V.....Q.........N...........L 14 0 0 0 0 0 14 0 14 14 100% [T19R,E156G,F157-,R158-,A222V,L452R,T478K,E484Q,D614G,P681R,D950N,T1009S,V1264L] Delta+V1264L
..R.......I..Y.G--...................N............ 14 10 3 1 0 0 0 0 14 11 78% [T19R,T95I,G142Y,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
F.R..........D.G--...................N..........H. 14 0 14 0 0 0 0 0 14 12 85% [L5F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1259H] Delta
F.R.....I....D.G--...................N............ 14 0 0 14 0 0 0 0 14 6 42% [L5F,T19R,V70I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R.......I..D.G--...................N.N........Y. 14 0 14 0 0 0 0 0 14 13 92% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1073N,D1259Y] Delta
..R.......I..DHG--...V..L............N...........L 14 14 0 0 0 0 0 0 14 8 57% [T19R,T95I,G142D,Y145H,S155I,E156G,F157-,R158-,A222V,W258L,T299I,L452R,T478K,D614G,P681R,D950N,V1264L]
..R.......I..D.G--...V...............N...........L 14 0 0 14 0 0 0 0 14 11 78% [T19R,T95I,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1264L] Delta+V1264L
..R.......I....G--.V...........H.....N............ 14 1 13 0 0 0 0 0 14 10 71% [T19R,T95I,E156G,F157-,R158-,G181V,L452R,T478K,D614G,Q677H,P681R,D950N,L1265F] Delta+FurinRelated
..R..........D.G--...V...............N........C... 14 0 14 0 0 0 0 0 14 12 85% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,G1219C] Delta+T95_,A222V
..R.......I....G--.................L.N..........Y. 14 0 14 0 0 0 0 0 14 13 92% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,S698L,I850L,D950N,D1259Y] Delta
..R.S.....I..D.G--...S...............N............ 14 1 7 6 0 0 0 0 14 14 100% [T19R,A27S,T95I,G142D,E156G,F157-,R158-,A222S,L452R,T478K,D614G,P681R,D950N]
..R............G--.V............................Y. 14 0 14 0 0 0 0 0 14 13 92% [T19R,E156G,F157-,R158-,G181V,L452R,T478K,D614G,P681R,D1259Y]
.FR.......I..DHG--...V...............N............ 14 14 0 0 0 0 0 0 14 14 100% [L18F,T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N] Delta+Y145H,A222V
..R..........D.G--.A.V...I...........N............ 13 0 0 13 0 0 0 0 13 11 84% [T19R,G142D,E156G,F157-,R158-,G181A,A222V,V289I,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V,V289I
..R..A.......D.G--....I..............N..........H. 13 0 13 0 0 0 0 0 13 7 53% [T19R,T29A,G142D,E156G,F157-,R158-,T250I,L452R,T478K,D614G,P681R,D950N,D1259H] Delta+T29A,T95_,T250I
..R..I.....L.D.G--...................N............ 13 0 0 13 0 0 0 0 13 13 100% [T19R,T29I,S112L,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta+S112L
.........YI.............L..K...................... 13 1 1 0 0 11 0 0 13 9 69% [D80Y,T95I,Y144-,W258L,E484K,D614G,P681H,D796H]
..R.......I....G--..............S....NS........... 13 0 0 13 0 0 0 0 13 10 76% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P809S,D950N,A1020S] Delta
..R..........D.G--......C............N............ 13 7 0 6 0 0 0 0 13 6 46% [T19R,G142D,E156G,F157-,R158-,W258C,G261C,L452R,T478K,D614G,V622F,P681R,D950N]
..R............G--.V.........H.......N............ 13 0 13 0 0 0 0 0 13 10 76% [T19R,E156G,F157-,R158-,G181V,L452R,T478K,Q613H,D614G,P681R,D950N]
..R.......I..A.G--...................N............ 13 13 0 0 0 0 0 0 13 12 92% [T19R,T95I,G142A,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..................................N...Y........ 13 0 0 13 0 0 0 0 13 13 100% [T19R,L452R,T478K,D614G,P681R,D950N,H1101Y]
..S..........D.G--.....L.............N............ 13 0 0 13 0 0 0 0 13 13 100% [T19S,G142D,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R,D950N]
..R..........D.G--.................L.N............ 13 0 13 0 0 0 0 0 13 6 46% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,I850L,D950N] Delta
..R..........Y.G--...................N............ 13 2 4 7 0 0 0 0 13 12 92% [T19R,G142Y,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--...V...I...........N............ 13 0 0 13 0 0 0 0 13 6 46% [T19R,T95I,G142D,E156G,F157-,R158-,A222V,V289I,L452R,T478K,D614G,P681R,D950N]
..R.......I..D.G--...................NS...L....... 13 0 0 13 0 0 0 0 13 5 38% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A688V,D950N,A1020S,V1104L] Delta
.....................................N...Y........ 13 0 0 13 0 0 0 0 13 13 100% [L452R,T478K,D614G,P681R,D950N,H1101Y]
F.R....V.....D.G--...................N............ 13 12 0 0 1 0 0 0 13 10 76% [L5F,T19R,T22I,A67V,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--...................NS.......C... 13 0 0 13 0 0 0 0 13 11 84% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1020S,G1219C] Delta
..R.......I....G--....................S........... 13 0 11 2 0 0 0 0 13 11 84% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A1020S]
.FR.....I....D.G--...................N............ 13 0 0 13 0 0 0 0 13 13 100% [L18F,T19R,V70I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R.......I.H..G--...................N............ 13 0 0 13 0 0 0 0 13 9 69% [T19R,T95I,D138H,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--......R............N..........H. 13 0 13 0 0 0 0 0 13 7 53% [T19R,G142D,E156G,F157-,R158-,W258R,L452R,T478K,D614G,P681R,D950N,D1259H]
..R.......I..D.G--....I..............N......F..... 13 13 0 0 0 0 0 0 13 11 84% [T19R,T95I,G142D,E156G,F157-,R158-,T250I,L452R,T478K,D614G,P681R,D950N,L1141F]
F.R............G--...V............................ 13 0 2 0 11 0 0 0 13 13 100% [L5F,T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R]
..R.....G.I..D.G--...................N.......S.... 13 13 0 0 0 0 0 0 13 13 100% [T19R,V70G,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162S]
..R.......I.HD.G--...................N..S......... 13 10 3 0 0 0 0 0 13 13 100% [T19R,T95I,D138H,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1078S] Delta
..R...F...I..DHG--...V...............N...Y........ 13 13 0 0 0 0 0 0 13 13 100% [T19R,V36F,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,H1101Y] Delta+Y145H,A222V
..R.......F..D.G--...................N............ 13 3 10 0 0 0 0 0 13 13 100% [T19R,T95F,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
.............D.......................N............ 12 0 10 2 0 0 0 0 12 8 66% [G142D,L452R,T478K,D614G,P681R,D950N]
..R............G--.......I...........N............ 12 0 6 6 0 0 0 0 12 5 41% [T19R,E156G,F157-,R158-,A262S,V289I,L452R,S477I,T478K,D614G,P681R,D950N,G1167V] Delta
..R.......I..DHG--...V............S..N............ 12 11 1 0 0 0 0 0 12 12 100% [T19R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,A845S,D950N] Delta+Y145H,A222V
..R.......I..D.G--.....T.............N.....V...... 12 12 0 0 0 0 0 0 12 11 91% [T19R,T95I,G142D,E156G,F157-,R158-,P251T,L452R,T478K,D614G,P681R,D950N,G1124V,K1191Q]
..R..........D.G--...V.......H.......N...........L 12 0 1 11 0 0 0 0 12 4 33% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,Q613H,D614G,P681R,D950N,V1264L] Delta+V1264L
..R.....F.I..DHG--.E.V...............N............ 12 12 0 0 0 0 0 0 12 9 75% [T19R,V70F,T95I,G142D,Y145H,E156G,F157-,R158-,G181E,A222V,L452R,T478K,D614G,P681R,D950N]
..R..........D.G--..........N........N............ 12 1 0 11 0 0 0 0 12 10 83% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,T572N,D614G,P681R,D950N] Delta
..R.......I..D.G--...S...............N...Y........ 12 12 0 0 0 0 0 0 12 11 91% [T19R,T95I,G142D,E156G,F157-,R158-,A222S,L452R,T478K,D614G,P681R,D950N,H1101Y]
..R............G--...V...............N.T.......... 12 0 12 0 0 0 0 0 12 11 91% [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,K1073T] Delta+T95_,A222V
..R.S..........G--...................N...Y........ 12 0 0 12 0 0 0 0 12 12 100% [T19R,A27S,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,H1101Y] Delta
..R.....A.I..D.G--...................N............ 12 11 0 0 1 0 0 0 12 11 91% [T19R,V70A,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R.......I..D.G--..G................N............ 12 5 2 5 0 0 0 0 12 6 50% [T19R,T95I,G142D,E156G,F157-,R158-,D215G,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--...V...............N....L....... 12 0 2 10 0 0 0 0 12 8 66% [T19R,T95I,K97E,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,V1104L]
..R.....F....D.G--...V...............N............ 12 0 3 9 0 0 0 0 12 3 25% [T19R,V70F,G142D,E156G,F157-,R158-,A222V,K417N,L452R,T478K,D614G,P681R,D950N] Delta+T95_,V70F,A222V,K417N
..R......Y.....G--.....L.............N............ 12 0 12 0 0 0 0 0 12 10 83% [T19R,D80Y,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R,D950N] Delta+T95_,P251L
..R..A.........G--....I...V....................... 12 0 0 0 12 0 0 0 12 11 91% [T19R,T29A,E156G,F157-,R158-,T250I,G446V,L452R,T478K,D614G,P681R]
..R.......I..........................N....L....... 12 0 11 1 0 0 0 0 12 7 58% [T19R,T95I,L452R,T478K,D614G,P681R,D950N,V1104L]
F.R.......I..D.G--...................N..S......... 12 8 0 4 0 0 0 0 12 9 75% [L5F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1078S] Delta
..R...F...I..DHG--...V...............N.....V...... 12 12 0 0 0 0 0 0 12 9 75% [T19R,V36F,G75R,T95I,G142D,Y145H,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,G1124V] Delta+Y145H,A222V
..R..........D.G--...............T...N............ 12 0 0 12 0 0 0 0 12 9 75% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812T,D950N] Delta
..R.......I....G--.V.................N....L....... 12 0 2 10 0 0 0 0 12 7 58% [T19R,T95I,E156G,F157-,R158-,G181V,L452R,T478K,D614G,P681R,D950N,V1104L] Delta
..R.......I.GD.G--...................N............ 12 9 1 2 0 0 0 0 12 9 75% [T19R,T95I,D138G,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.V.....I....G--...................N............ 12 1 9 2 0 0 0 0 12 11 91% [T19R,A27V,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--.R.................NS........... 12 0 0 12 0 0 0 0 12 8 66% [T19R,G142D,E156G,F157-,R158-,G181R,L452R,T478K,D614G,P681R,D950N,A1020S] Delta
.....................V............................ 12 1 11 0 0 0 0 0 12 6 50% [A222V,D614G]
..R............G--..............L....N............ 12 0 1 11 0 0 0 0 12 6 50% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P809L,D950N] Delta
F.R..........D.G--...................N...........L 12 6 0 2 4 0 0 0 12 11 91% [L5F,T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1264L] Delta+V1264L
..R.......I..D.G--...............L...N..S......... 12 12 0 0 0 0 0 0 12 12 100% [T19R,T95I,G142D,E156G,F157-,R158-,A263V,L452R,T478K,D614G,P681R,P812L,D950N,A1078S] Delta
..R............G--...V...L...........N............ 12 0 0 0 12 0 0 0 12 12 100% [T19R,E156G,F157-,R158-,A222V,V289L,L452R,T478K,D614G,P681R,D950N]
.FR........L...G--...................N............ 12 0 0 12 0 0 0 0 12 10 83% [L18F,T19R,S112L,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta+S112L
..R.......IP.D.G--...................N............ 12 4 0 8 0 0 0 0 12 11 91% [T19R,T95I,S112P,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R.......I..D.G--G..................N............ 12 11 0 1 0 0 0 0 12 12 100% [T19R,T95I,G142D,E156G,F157-,R158-,E180G,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--...V.......H.......N.N.......... 12 0 0 12 0 0 0 0 12 11 91% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,Q613H,D614G,P681R,D950N,K1073N] Delta+T95_,A222V
..R........L.D.G--...................N.N.......... 12 0 0 12 0 0 0 0 12 11 91% [T19R,S112L,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1073N] Delta+S112L
..R............G--.....L.............N..S......... 12 0 12 0 0 0 0 0 12 12 100% [T19R,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R,D950N,A1078S] Delta+T95_,P251L
..R............G--...V........K......N...Y........ 12 0 12 0 0 0 0 0 12 12 100% [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,Q675K,P681R,D950N,H1101Y] Delta+FurinRelated
..R...F...I..D.G--...................N..........Y. 11 1 8 0 0 0 0 2 11 10 90% [T19R,V36F,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,D1259Y] Delta
..R........L.D.G--................................ 11 0 0 10 0 0 1 0 11 7 63% [T19R,S112L,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R]
..R............G--...V...............N.........I.. 11 0 1 1 9 0 0 0 11 6 54% [T19R,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,M1237I] Delta+T95_,A222V
..R......Y...D.G--.....L.............N............ 11 2 8 1 0 0 0 0 11 9 81% [T19R,D80Y,G142D,E156G,F157-,R158-,P251L,L452R,T478K,D614G,P681R,D950N] Delta+T95_,P251L
..R..........D.G--.............R.....N............ 11 2 0 8 0 1 0 0 11 7 63% [T19R,G142D,E156G,F157-,R158-,A243-,L244-,L452R,T478K,D614G,Q677R,P681R,D950N] Delta+FurinRelated
..R..........D.G--.E...L.............N............ 11 3 8 0 0 0 0 0 11 7 63% [T19R,H49Y,G142D,E156G,F157-,R158-,G181E,P251L,L452R,T478K,D614G,P681R,D950N] Delta+T95_,P251L
..R............G--...V....V..........N............ 11 0 3 0 8 0 0 0 11 10 90% [T19R,E156G,F157-,R158-,A222V,G446V,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V
..R..........D.G--.....L.....H.......N............ 11 0 0 11 0 0 0 0 11 11 100% [T19R,G142D,E156G,F157-,R158-,P251L,L452R,T478K,Q613H,D614G,P681R,D950N] Delta+T95_,P251L
..R.......I....G--G..................N....L....... 11 0 0 11 0 0 0 0 11 11 100% [T19R,T95I,E156G,F157-,R158-,E180G,L452R,T478K,D614G,P681R,D950N,V1104L] Delta
..R..........D.G--.........A.........N............ 11 1 5 3 2 0 0 0 11 8 72% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,E484A,D614G,P681R,D950N]
..R..........D.G--....N..............N............ 11 6 5 0 0 0 0 0 11 6 54% [T19R,G142D,E156G,F157-,R158-,T250N,L452R,T478K,D614G,P681R,D950N]
..R.......I..-.G--...................N............ 11 5 0 6 0 0 0 0 11 3 27% [T19R,T95I,L141-,G142-,V143-,Y144-,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R....V.......G--...V.........................I.. 11 0 11 0 0 0 0 0 11 11 100% [T19R,A67V,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,Q1208H,M1237I]
..R.......I..D.G--......L..Q.........N............ 11 0 11 0 0 0 0 0 11 9 81% [T19R,T95I,G142D,E156G,F157-,R158-,W258L,L452R,T478K,E484Q,D614G,P681R,D950N]
..R.......I....G--..Y..............L.N............ 11 0 11 0 0 0 0 0 11 11 100% [T19R,T95I,E156G,F157-,R158-,D215Y,L452R,T478K,D614G,P681R,I850L,D950N,V1129I] Delta
..R..........D.G--........V..........N..S......... 11 2 1 7 1 0 0 0 11 11 100% [T19R,G142D,E156G,F157-,R158-,G446V,L452R,T478K,D614G,P681R,D950N,A1078S] Delta
..R.......I..D.V--...................N............ 11 10 0 1 0 0 0 0 11 8 72% [T19R,T95I,G142D,E156V,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R.......I....G--.V..........H......N............ 11 0 0 11 0 0 0 0 11 8 72% [T19R,T95I,E156G,F157-,R158-,G181V,L452R,T478K,D614G,Q675H,P681R,D950N] Delta+FurinRelated
..R.......I..--G--...................N.T.......... 11 11 0 0 0 0 0 0 11 11 100% [T19R,H66R,T95I,P139-,F140-,L141-,G142-,V143-,Y144-,Y145-,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1073T] Delta
F.R..........D.G--...V.......H.......N............ 11 0 0 11 0 0 0 0 11 8 72% [L5F,T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,Q613H,D614G,P681R,D950N] Delta+T95_,A222V
..R.......I..D.G--.............H.....N...........L 11 11 0 0 0 0 0 0 11 10 90% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N,V1264L,L1265F] Delta+FurinRelated
..S.......I..D.G--...................N............ 11 10 0 1 0 0 0 0 11 11 100% [T19S,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R.......I.ND.G--...................N............ 11 10 1 0 0 0 0 0 11 11 100% [T19R,T95I,D138N,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..A....I....G--....I..............N............ 11 0 11 0 0 0 0 0 11 9 81% [T19R,T29A,T95I,E156G,F157-,R158-,T250I,L452R,T478K,D614G,P681R,D950N]
..R..........D.G--...V............V..N............ 11 0 10 1 0 0 0 0 11 11 100% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,A845V,D950N] Delta+T95_,A222V
..R............G--...................N..T......... 11 0 0 11 0 0 0 0 11 10 90% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1078T] Delta
..R.......I.HD.G--......L............N............ 11 11 0 0 0 0 0 0 11 11 100% [T19R,T95I,D138H,G142D,E156G,F157-,R158-,W258L,L452R,T478K,D614G,P681R,T827I,D950N]
..R.......I..D.G--.........Q.H.....L.N............ 11 0 11 0 0 0 0 0 11 9 81% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,E484Q,Q613H,D614G,P681R,I850L,D950N] Delta+E484Q
..R.......I..D.G--......L............N.........I.. 11 0 0 11 0 0 0 0 11 11 100% [T19R,T95I,G142D,E156G,F157-,R158-,W258L,K417N,L452R,T478K,D614G,P681R,D950N,M1237I]
..R..A.T.....D.G--....I..............N............ 11 1 10 0 0 0 0 0 11 11 100% [T19R,T29A,A67T,G142D,E156G,F157-,R158-,T250I,L452R,T478K,D614G,P681R,D950N] Delta+T29A,T95_,T250I
..R.......I.HD.G--..Y................N............ 11 11 0 0 0 0 0 0 11 11 100% [T19R,T95I,D138H,G142D,E156G,F157-,R158-,D215Y,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--...................N.......R.... 10 10 0 0 0 0 0 0 10 9 90% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,P1162R] Delta
F.R.......I....G--................................ 10 0 4 5 0 0 1 0 10 3 30% [L5F,T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,E1258D]
..R.....I....D.G--...................NS........... 10 0 1 9 0 0 0 0 10 6 60% [T19R,V70I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,A1020S]
..R.......I..D.G--...................N....A....... 10 1 0 0 0 0 0 9 10 10 100% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104A] Delta
..........I..D.......................N............ 10 0 10 0 0 0 0 0 10 7 70% [T95I,G142D,L452R,T478K,D614G,P681R,D950N]
..R............G--...................N.T.......... 10 1 0 9 0 0 0 0 10 8 80% [T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,K1073T] Delta
..R.....I.I..D.G--...................N............ 10 6 3 1 0 0 0 0 10 5 50% [T19R,V70I,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N]
..R............G--..HV...............N............ 10 7 3 0 0 0 0 0 10 8 80% [T19R,E156G,F157-,R158-,D215H,A222V,L452R,T478K,D614G,P681R,D950N] Delta+T95_,A222V
..R..A.........G--....I........................... 10 0 4 3 3 0 0 0 10 7 70% [T19R,T29A,E156G,F157-,R158-,T250I,L452R,T478K,D614G,P681R]
..R.......I...HG--...V...............N..S......... 10 0 10 0 0 0 0 0 10 6 60% [T19R,T95I,Y145H,W152L,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R,D950N,A1078S] Delta+Y145H,A222V
..R.......I..D.G--.........G.........N............ 10 6 1 3 0 0 0 0 10 5 50% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,E484G,D614G,P681R,D950N]
..R.......I...HG--.................L.N............ 10 0 10 0 0 0 0 0 10 10 100% [T19R,T95I,Y145H,E156G,F157-,R158-,L452R,T478K,D614G,P681R,I850L,D950N] Delta
..R.......I....G--.............H.....N.N.......... 10 0 0 10 0 0 0 0 10 9 90% [T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N,K1073N] Delta+FurinRelated
..R.......I....G--...V............................ 10 0 2 1 6 0 1 0 10 6 60% [T19R,T95I,E156G,F157-,R158-,A222V,L452R,T478K,D614G,P681R]
..R.......I..D.G--...........H.......N.N.......... 10 2 8 0 0 0 0 0 10 8 80% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,Q613H,D614G,P681R,D950N,K1073N]
..R.......I.HD.G--........V..........N............ 10 8 0 2 0 0 0 0 10 9 90% [T19R,T95I,D138H,G142D,E156G,F157-,R158-,G446V,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--...................N.........I.L 10 10 0 0 0 0 0 0 10 10 100% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,M1237I,V1264L] Delta+V1264L
..R.......I..D.G--...................N....LV...... 10 0 2 8 0 0 0 0 10 7 70% [T19R,T95I,K97E,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,V1104L,G1124V] Delta
..R......GI..D.G--...................N............ 10 8 0 2 0 0 0 0 10 7 70% [T19R,D80G,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
F.R.......I..D.G--.............H.....N............ 10 4 2 4 0 0 0 0 10 7 70% [L5F,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N] Delta+FurinRelated
..R............G--.........Q...................... 10 0 1 3 1 0 5 0 10 5 50% [T19R,E156G,F157-,R158-,L452R,T478K,E484Q,D614G,P681R]
F.R.......I....G--...............S...N............ 10 2 8 0 0 0 0 0 10 10 100% [L5F,T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,P812S,D950N] Delta
..I............G--................S............... 10 0 10 0 0 0 0 0 10 7 70% [T19I,E156G,F157-,R158-,L452R,T478K,D614G,P681R,A845S]
..R..........D.G--...V....V..........N...........L 10 0 0 10 0 0 0 0 10 7 70% [T19R,G142D,E156G,F157-,R158-,A222V,G446V,L452R,T478K,D614G,P681R,D950N,N1074S,V1264L] Delta+N1074S,V1264L
..R..........D.G--.....L...V.........N............ 10 0 9 0 1 0 0 0 10 5 50% [T19R,G142D,E156G,F157-,R158-,P251L,A262S,T307I,L452R,T478K,E484V,D614G,P681R,D950N]
I.R............G--...................N............ 10 0 0 10 0 0 0 0 10 7 70% [L5I,T19R,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R.......I..D.G--...................SV........... 10 10 0 0 0 0 0 0 10 10 100% [T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950S,A1020V,E1072A]
..R..........D.G--...................N.........T.. 10 0 3 7 0 0 0 0 10 8 80% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N,M1237T] Delta
F.R.......I..D.G--......L............N............ 10 0 10 0 0 0 0 0 10 10 100% [L5F,T19R,T95I,G142D,E156G,F157-,R158-,W258L,L452R,T478K,D614G,P681R,D950N]
..R..........D.G--...V........K......N...Y........ 10 0 10 0 0 0 0 0 10 9 90% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,Q675K,P681R,D950N,H1101Y] Delta+FurinRelated
..R..........D.G--...V........H......N............ 10 10 0 0 0 0 0 0 10 10 100% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,D614G,Q675H,P681R,D950N] Delta+FurinRelated
.FR......Y...D.G--...................N............ 10 0 1 9 0 0 0 0 10 9 90% [L18F,T19R,D80Y,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,D950N] Delta
..R..........D.G--...V..........S....N............ 10 0 7 3 0 0 0 0 10 5 50% [T19R,G142D,E156G,F157-,R158-,A222V,D253A,L452R,T478K,D614G,P681R,P809S,D950N,D979E] Delta+T95_,A222V
..R..........D.G--...V......I........N............ 10 0 1 8 1 0 0 0 10 7 70% [T19R,G142D,E156G,F157-,R158-,A222V,L452R,T478K,T572I,D614G,P681R,D950N] Delta+T95_,A222V
..R..........D.G--...................N.....S...... 10 9 0 0 1 0 0 0 10 8 80% [T19R,G142D,E156G,F157-,R158-,Q239E,L452R,T478K,D614G,P681R,D950N,G1124S] Delta
..R.........YD.G--.V.........H.......N............ 10 0 10 0 0 0 0 0 10 8 80% [T19R,D138Y,G142D,E156G,F157-,R158-,G181V,L452R,T478K,Q613H,D614G,P681R,D950N]
..R..........D.G--...V...I...........N........C... 10 0 0 10 0 0 0 0 10 9 90% [T19R,G142D,E156G,F157-,R158-,A222V,V289I,L452R,T478K,D614G,P681R,D950N,G1219C] Delta+T95_,A222V,V289I
F.R.......I....G--.............H.....N............ 10 0 10 0 0 0 0 0 10 5 50% [L5F,T19R,T95I,E156G,F157-,R158-,L452R,T478K,D614G,Q677H,P681R,D950N] Delta+FurinRelated
-.R.......I..D.G--.................L.N............ 10 0 10 0 0 0 0 0 10 5 50% [L5-,T19R,T95I,G142D,E156G,F157-,R158-,L452R,T478K,D614G,P681R,I850L,D950N] Delta
..R.......I..D.G--..G................N.....V...... 10 10 0 0 0 0 0 0 10 10 100% [T19R,T95I,G142D,E156G,F157-,R158-,D215G,L452R,T478K,D614G,P681R,D950N,G1124V] Delta
..R..........D.G--...........E.......N............ 10 10 0 0 0 0 0 0 10 10 100% [T19R,G142D,E156G,F157-,R158-,L452R,T478K,D574Y,Q613E,D614G,P681R,S813I,D950N,G1167V]
..R..........D.G--..Y................N...........L 10 0 0 0 10 0 0 0 10 10 100% [T19R,G142D,E156G,F157-,R158-,D215Y,L452R,T478K,D614G,P681R,D950N,V1264L] Delta+V1264L
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last modified: Thu Oct 14 13:00 2021
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Questions or comments? Contact us at seq-info@lanl.gov.
Questions or comments? Contact us at seq-info@lanl.gov.
