Table 5. The reproducibility of positions with at least one ≥5% variant when alignment files from the respective DPPs are all uploaded into DPP3 for only the mSNV identification process versus when the mSNV identifications are fully performed by the respective DPPs.
| Virus | Position | Sequence platform | Data Processing pipeline | Bam file generating processing pipeline | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 2 | 3 | 1 | 2 | 3 | |||||||||
| Minor variants | Percentage | Minor variants | Percentage | Minor variants | Percentage | Minor variants | Percentage | Minor variants | Percentage | Minor variants | Percentage | |||
| NLCH | PB2.1879 G→A | 1 | 81/1301 | 6,2% | 246/2716 | 9,1% | 112/1203 | 9,3% | 132/1375 | 9,6% | 246/2716 | 9,1% | 121/1301 | 9,3% |
| 2 | 47/956 | 4,9% | 117/1137 | 10,3% | 114/1064 | 10,7% | 119/1122 | 10,6% | 117/1137 | 10,3% | 114/1064 | 10,7% | ||
| 3 | 49/530 | 9,2% | 131/1341 | 9,8% | 129/1338 | 9,6% | 54/542 | 10,0% | 131//1341 | 9,8% | 129/1338 | 9,6% | ||
| PB2.2101 G→A | 1 | 53/1118 | 4,7% | 261/2704 | 9,7% | 110/897 | 12,3% | 138/1180 | 11,7% | 261/2704 | 9,7% | 121/1086 | 11,1% | |
| 2 | 21/1578 | 1,3% | 125/1875 | 6,7% | 121/1463 | 8,3% | ND/1856## | <1% | ND/1850# | <1% | 121/1463 | 8,3% | ||
| 3 | 13/542 | 2,4% | 199/1433 | 13,9% | 199/1435 | 13,9% | 87/625 | 13,9% | 199/1433 | 13,9% | 199/1435 | 13,9% | ||
| PB2.2277 T→G | 1 | ND/479 | <1% | 86/1008 | 8,5% | 33/190 | 17,4% | ND/849 | <1% | ND/1008## | <1% | 37/281 | 13,2% | |
| 2 | ND/557 | <1% | ND/623 | <1% | ND/534 | <1% | ND/619 | <1% | ND/623 | <1% | ND/534 | <1% | ||
| 3 | ND/680 | <1% | ND/1117 | <1% | ND/1024 | <1% | ND/708 | <1% | ND/1117 | <1% | ND/1027 | <1% | ||
| PB1.87 A→G | 1 | ND/818 | <1% | ND/1754 | <1% | ND/1114 | <1% | ND/1264 | <1% | ND/1753 | <1% | ND/1114 | <1% | |
| 2 | 25/230 | 10,9% | ND/376 | <1% | ND/328 | <1% | ND/368## | <1% | ND/376 | <1% | ND/328 | <1% | ||
| 3 | ND/275 | <1% | ND/537 | <1% | ND/537 | <1% | ND/278 | <1% | ND/537 | <1% | ND/537 | <1% | ||
| PB1.2240 G→C | 1 | ND/664 | <1% | 54/1341 | 4,0% | 38/418 | 9,1% | ND/1004 | <1% | ND/1341# | <1% | 46/486 | 9,5% | |
| 2 | ND/1231 | <1% | ND/1271 | <1% | ND/1233 | <1% | ND/1277 | <1% | ND/1271 | <1% | ND/1235 | <1% | ||
| 3 | ND/161 | <1% | ND/277 | <1% | ND/276 | <1% | ND/163 | <1% | ND/277 | <1% | ND/276 | <1% | ||
| PB1.2268 A→G | 1 | ND/336 | <1% | 29/641 | 4,5% | 11/176 | 6,3% | 15/322* | 4,66%* | 37/641 | 5,8% | 13/213 | 6,1% | |
| 2 | ND/993 | <1% | ND/1026 | <1% | ND/1002 | <1% | ND/1025 | <1% | ND/1026 | <1% | ND/1002 | <1% | ||
| 3 | ND/53 | <1% | ND/159 | <1% | ND/148 | <1% | ND/90 | <1% | ND/159 | <1% | ND/151 | <1% | ||
| PA.2167 T→G | 1 | ND/141 | <1% | ND/288 | <1% | ND/154 | <1% | ND/235 | <1% | 21/288* | 7,29%* | ND/154 | <1% | |
| 2 | ND/757 | <1% | ND/807 | <1% | ND/773 | <1% | ND/812 | <1% | ND/807 | <1% | ND/733 | <1% | ||
| 3 | ND/704 | <1% | ND/1070 | <1% | ND/1077 | <1% | ND/714 | <1% | ND/1070 | <1% | ND/1078 | <1% | ||
| HA.104 A→G | 1 | ND/733 | <1% | ND/1761 | <1% | ND/1151 | <1% | ND/1175 | <1% | ND/1761 | <1% | ND/1135 | <1% | |
| 2 | ND/437 | <1% | ND/1370 | <1% | ND/1156 | <1% | ND/1326 | <1% | ND/1369 | <1% | ND/1142 | <1% | ||
| 3 | ND/1 | <1% | ND/105 | <1% | 12/105 | 11,4% | ND/6 | <1% | ND/105 | <1% | 12/105 | 11,4% | ||
| HA.1689 T→C | 1 | ND/390 | <1% | ND/694 | <1% | 11/217 | 5,1% | ND/610 | <1% | ND/694 | <1% | 13/260 | 5,0% | |
| 2 | ND/2018 | <1% | ND/4083 | <1% | ND/3979 | <1% | ND/4045 | <1% | ND/4081 | <1% | ND/3979 | <1% | ||
| 3 | ND/937 | <1% | ND/1669 | <1% | ND/1680 | <1% | ND/1106 | <1% | ND/1669 | <1% | ND/1680 | <1% | ||
| NA.3 T→C | 1 | ND/32 | <1% | ND/105 | <1% | ND/49 | <1% | ND/92 | <1% | 7/105* | 6,67%* | ND/49 | <1% | |
| 2 | ND/6 | <1% | ND/313 | <1% | ND/297 | <1% | ND/305 | <1% | ND/313 | <1% | ND/297 | <1% | ||
| 3 | ND/2 | <1% | ND/25 | <1% | ND/25 | <1% | ND/6 | <1% | ND/25 | <1% | ND/25 | <1% | ||
| NP.105 A→G | 1 | ND/182 | <1% | ND/449 | <1% | ND/343 | <1% | ND/374 | <1% | 6/449* | 1,34%* | ND/343 | <1% | |
| 2 | 83/1507 | 5,5% | ND/1890 | <1% | ND/1804 | <1% | ND/1866## | <1% | ND/1890 | <1% | ND/1805 | <1% | ||
| 3 | ND/89 | <1% | ND/704 | <1% | ND/702 | <1% | ND/246 | <1% | ND/704 | <1% | ND/703 | <1% | ||
| NP.1239 A→T | 1 | 32/2428 | 1,3% | 279/5410 | 5,2% | ND/3092 | <1% | ND/3372## | <1% | ND/5410# | <1% | ND/3092 | <1% | |
| 2 | ND/2345 | <1% | ND/2643 | <1% | ND/2453 | <1% | ND/2626 | <1% | ND/2643 | <1% | ND/2453 | <1% | ||
| 3 | ND/1711 | <1% | ND/2111 | <1% | ND/2117 | <1% | ND/1712 | <1% | ND/2111 | <1% | ND/2117 | <1% | ||
| NP.1489 G→A | 1 | ND/182 | <1% | 26/336 | 7,7% | ND/172 | <1% | ND/242 | <1% | 26/376* | 6,9% | ND/172 | <1% | |
| 2 | ND/436 | <1% | ND/452 | <1% | ND/444 | <1% | ND/451 | <1% | ND/451 | <1% | ND/444 | <1% | ||
| 3 | ND/1320 | <1% | ND/1799 | <1% | ND/1799 | <1% | ND/1325 | <1% | ND/1799 | <1% | ND/1799 | <1% | ||
| NS.827 C→T | 1 | ND/249 | <1% | 19/419 | 4,5% | ND/205 | <1% | ND/365 | <1% | 21/412 | 5,3% | ND/205 | <1% | |
| 2 | ND/1316 | <1% | ND/1423 | <1% | ND/1375 | <1% | ND/1427 | <1% | ND/1422 | <1% | ND/1375 | <1% | ||
| 3 | ND/2091 | <1% | ND/2901 | <1% | ND/2757 | <1% | ND/2293 | <1% | ND/2898 | <1% | ND/2929 | <1% | ||
| NS829 G→T | 1 | ND/221 | <1% | 19/380 | 5,0% | ND/179 | <1% | ND/328 | <1% | 19/376 | 5,4% | ND/179 | <1% | |
| 2 | ND/1302 | <1% | ND/1391 | <1% | ND/1341 | <1% | ND/1388 | <1% | ND/1389 | <1% | ND/1341 | <1% | ||
| 3 | ND/2117 | <1% | ND/2852 | <1% | ND/2727 | <1% | ND/2279 | <1% | ND/2852 | <1% | ND/2880 | <1% | ||
| NS.833 A→T | 1 | ND/187 | <1% | ND/287 | <1% | 5/88 | 5,7% | ND/259 | <1% | 11/257* | 4,28%* | 5/96 | 5,2% | |
| 2 | ND/1224 | <1% | ND/1327 | <1% | ND/1284 | <1% | ND/1314 | <1% | ND/1322 | <1% | ND/1284 | <1% | ||
| 3 | ND/1367 | <1% | ND/2430 | <1% | ND/2333 | <1% | ND/1779 | <1% | ND/2430 | <1% | ND/2360 | <1% | ||
| DETU | PB2.900 A→G | 1 | 38/1335 | 2,9% | 136/2740 | 5,0% | 61/1231 | 5,0% | 68/1328 | 5,12 | 136/2740 | 4,96 | 65/1322 | 4,92 |
| 2 | 35/1645 | 2,1% | 77/1800 | 4,3% | 66/1629 | 4,1% | 70/1775 | 4,0% | 77/1800 | 4,3% | 66/1629 | 4,1% | ||
| 3 | 30/861 | 3,5% | 86/2308 | 3,7% | 47/1245 | 3,8% | ND/1001## | <1% | ND/2308# | <1% | 47/1245 | 3,8% | ||
| PB2.1054 T→C | 1 | 69/1369 | 5,0% | 168/2637 | 6,4% | 97/1304 | 7,4% | 105/1393 | 7,5% | 168/2637 | 6,4% | 100/1376 | 7,3% | |
| 2 | 60/1477 | 4,1% | 115/1836 | 6,3% | 99/1605 | 6,2% | 113/1810 | 6,2% | 115/1836 | 6,3% | 99/1605 | 6,2% | ||
| 3 | 6/392 | 1,5% | 94/2038 | 4,6% | 48/1054 | 4,6% | 32/524 | 6,1% | 94/2038 | 4,6% | 48/1054 | 4,6% | ||
| PB2.2257 A→C | 1 | ND/867 | <1% | ND/1563 | <1% | 24/463 | 5,2% | ND/1447 | <1% | ND/1562 | <1% | 26/472 | 5,5% | |
| 2 | ND/531 | <1% | ND/581 | <1% | ND/378 | <1% | ND/588 | <1% | ND/580 | <1% | ND/378 | <1% | ||
| 3 | ND/893 | <1% | ND/2286 | <1% | ND/1346 | <1% | ND/1341 | <1% | ND/2185 | <1% | ND/1347 | <1% | ||
| PB2.2277 T→G | 1 | ND/644 | <1% | 52/1150 | 4,5% | 27/307 | 8,8% | ND/1062 | <1% | ND/1150# | <1% | 28/381 | 7,4% | |
| 2 | ND/418 | <1% | ND/472 | <1% | ND/284 | <1% | ND/474 | <1% | ND/472 | <1% | ND/284 | <1% | ||
| 3 | ND/1208 | <1% | ND/1948 | <1% | ND/1209 | <1% | ND/1251 | <1% | ND/1948 | <1% | ND/1214 | <1% | ||
| PB1.14 C→T | 1 | ND/144 | <1% | 48/433 | 11,1% | ND/239 | <1% | ND/362 | <1% | 48/433 | 11,1% | ND/239 | <1% | |
| 2 | ND/90 | <1% | ND/355 | <1% | ND/304 | <1% | ND/345 | <1% | ND/351 | <1% | ND/304 | <1% | ||
| 3 | ND/562 | <1% | ND/792 | <1% | ND/496 | <1% | ND/633 | <1% | ND/655 | <1% | ND/504 | <1% | ||
| PB1.23 T→G | 1 | ND/207 | <1% | 30/535 | 5,6% | ND/315 | <1% | ND/470 | <1% | 30/535 | 5,6% | ND/315 | <1% | |
| 2 | ND/103 | <1% | ND/365 | <1% | ND/319 | <1% | ND/365 | <1% | 4/365* | 1,96%* | ND/319 | <1% | ||
| 3 | ND/699 | <1% | ND/950 | <1% | ND/609 | <1% | ND/702 | <1% | ND/950 | <1% | ND/609 | <1% | ||
| PB1.87 A→G | 1 | ND/744 | <1% | ND/1644 | <1% | ND/1076 | <1% | ND/1218 | <1% | ND/1644 | <1% | ND/1076 | <1% | |
| 2 | 49/365 | 13,4% | ND/677 | <1% | ND/576 | <1% | 13/638 | 2,0% | ND/674 | <1% | ND/576 | <1% | ||
| 3 | ND/721 | <1% | ND/1156 | <1% | ND/793 | <1% | ND/731 | <1% | ND/1156 | <1% | ND/793 | <1% | ||
| PB1.2240 G→C | 1 | ND/757 | <1% | 23/1517 | 1,5% | 26/515 | 5,0% | ND/1266 | <1% | ND/1515# | <1% | 28/631 | 4,4% | |
| 2 | ND/944 | <1% | ND/985 | <1% | ND/806 | <1% | ND/994 | <1% | ND/984 | <1% | ND/806 | <1% | ||
| 3 | ND/274 | <1% | ND/439 | <1% | ND/253 | <1% | ND/301 | <1% | ND/439 | <1% | ND/253 | <1% | ||
| PB1.2268 A→G | 1 | 5/470 | 1,1% | 33/928 | 3,6% | 22/278 | 7,9% | 28/420 | 6,7% | ND/928## | <1% | 23/354 | 6,5% | |
| 2 | ND/798 | <1% | ND/829 | <1% | ND/671 | <1% | ND/839 | <1% | ND/829 | <1% | ND/671 | <1% | ||
| 3 | ND/109 | <1% | ND/259 | <1% | ND/123 | <1% | ND/193 | <1% | ND/259 | <1% | ND/126 | <1% | ||
| PB1.2271 A→G | 1 | 12/446 | 2,7% | 59/901 | 6,5% | 16/263 | 6,1% | 29/413 | 7,0% | 59/901 | 6,6% | 21/336 | 6,3% | |
| 2 | ND/729 | <1% | 47/810 | 5,8% | 40/649 | 6,2% | 43/750* | 5,73%* | 47/810 | 5,8% | 40/649 | 6,2% | ||
| 3 | 1/32 | 3,1% | ND/123 | <1% | 2/83 | 2,4% | 5/75 | 6,7% | 5/124* | 4,03%* | 2/83 | 2,4% | ||
| HA.867 C→T | 1 | 59/1533 | 3,8% | 206/3183 | 6,5% | 104/1537 | 6,8% | 112/1584 | 7,1% | 206/3183 | 6,5% | 109/1573 | 6,9% | |
| 2 | 59/2031 | 2,9% | 150/2525 | 5,9% | 127/2253 | 5,6% | 144/2502 | 5,8% | 150/2525 | 5,9% | 127/2253 | 5,6% | ||
| 3 | 11/180 | 6,1% | 48/647 | 7,4% | 28/385 | 7,3% | 13/182 | 7,1% | 48/647 | 7,4% | 28/385 | 7,3% | ||
| HA.963 T→C | 1 | 122/1401 | 8,7% | 446/3071 | 14,5% | 189/1419 | 13,3% | 200/1468 | 13,6% | 446/3071 | 14,5% | 193/1455 | 13,3% | |
| 2 | 90/1517 | 5,9% | 318/2189 | 14,5% | 247/1828 | 13,5% | 308/2165 | 14,2% | 318/2189 | 14,5% | 247/1828 | 13,5% | ||
| 3 | 5/69 | 7,2% | 107/606 | 17,7% | 47/293 | 16,0% | 12/81 | 14,8% | 107/606 | 17,7% | 47/293 | 16,0% | ||
| NP.1491 C→A | 1 | ND/278 | <1% | 71/583 | 12,2% | ND/206 | <1% | ND/390 | <1% | ND/579# | <1% | ND/206 | <1% | |
| 2 | ND/723 | <1% | ND/769 | <1% | ND/692 | <1% | ND/766 | <1% | ND/769 | <1% | ND/692 | <1% | ||
| 3 | ND/799 | <1% | ND/2031 | <1% | ND/1206 | <1% | ND/858 | <1% | ND/2031 | <1% | ND/1206 | <1% | ||
| NA.65 T→C | 1 | 19/503 | 3,8% | 52/1229 | 4,2% | 16/467 | 3,4% | 22/535 | 4,1% | 52/1229 | 4,2% | 20/540 | 3,7% | |
| 2 | 20/662 | 3,0% | 50/1104 | 4,5% | 45/992 | 4,5% | 52/1063 | 4,9% | 50/1104 | 4,5% | 45/992 | 4,5% | ||
| 3 | 24/557 | 4,3% | 53/1099 | 4,8% | 37/727 | 5,1% | 28/584 | 4,8% | 53/1099 | 4,8% | 37/727 | 5,1% | ||
| NA.78 T→C | 1 | 23/599 | 3,8% | 57/1403 | 4,1% | 20/557 | 3,6% | 23/622 | 3,7% | 57/1403 | 4,1% | 24/638 | 3,8% | |
| 2 | 21/692 | 3,0% | 55/1147 | 4,8% | 50/1033 | 4,8% | 54/1109 | 4,9% | 55/1147 | 4,8% | 50/1033 | 4,8% | ||
| 3 | 23/580 | 4,0% | 51/1124 | 4,5% | 37/735 | 5,0% | 27/585 | 4,6% | ND/1124# | <1% | 37/735 | 5,0% | ||
| NA.89 T→C | 1 | 23/713 | 3,2% | 55/1670 | 3,3% | 22/651 | 3,4% | 26/731 | 3,6% | 55/1670 | 3,3% | 26/751 | 3,5% | |
| 2 | 23/798 | 2,9% | 56/1261 | 4,4% | 50/1134 | 4,4% | 54/1224 | 4,4% | 56/1261 | 4,4% | 50/1134 | 4,4% | ||
| 3 | 24/580 | 4,1% | 55/1196 | 4,6% | 40/775 | 5,2% | 28/587 | 4,8% | 55/1196 | 4,6% | 40/775 | 5,2% | ||
| NA.117 T→C | 1 | 37/908 | 4,1% | 87/2140 | 4,1% | 36/818 | 4,4% | 40/914 | 4,4% | 87/2140 | 4,7% | 43/922 | 4,7% | |
| 2 | 28/1102 | 2,5% | 67/1631 | 4,1% | ND/1459 | <1% | 70/1586 | 4,4% | 67/1631 | 4,1% | ND/1459 | <1% | ||
| 3 | 22/531 | 4,1% | 57/1276 | 4,5% | 42/812 | 5,2% | 28/544 | 5,2% | ND/1276# | <1% | 42/812 | 5,2% | ||
| NA.126 T→C | 1 | 37/983 | 3,8% | 83/2294 | 3,6% | 36/876 | 4,1% | 39/973 | 4,0% | 83/2294 | 3,6% | 43/981 | 4,4% | |
| 2 | 31/1126 | 2,8% | 72/1676 | 4,3% | 65/1502 | 4,3% | 75/1616 | 4,6% | 72/1676 | 4,3% | 65/1502 | 4,3% | ||
| 3 | 26/519 | 5,0% | 62/1395 | 4,4% | 43/812 | 5,3% | 30/537 | 5,6% | 62/1395 | 4,4% | 43/812 | 5,3% | ||
| UKDD | PB2.2277 T→G | 1 | ND/415 | <1% | 28/507 | 5,5% | ND/475 | <1% | ND/503 | <1% | ND/507# | <1% | ND/475 | <1% |
| 2 | ND/589 | <1% | ND/620 | <1% | ND/601 | <1% | ND/627 | <1% | ND/620 | <1% | ND/601 | <1% | ||
| 3 | ND/1140 | <1% | ND/1996 | <1% | ND/2065 | <1% | ND/1186 | <1% | ND/1996 | <1% | ND/2071 | <1% | ||
| PB2.2278 T→G | 1 | ND/367 | <1% | ND/471 | <1% | ND/464## | <1% | ND/465 | <1% | ND/471 | <1% | 17/268 | 6,3% | |
| 2 | ND/581 | <1% | ND/613 | <1% | ND/581 | <1% | ND/621 | <1% | ND/588 | <1% | ND/581 | <1% | ||
| 3 | ND/1141 | <1% | ND/1985 | <1% | ND/1993 | <1% | ND/1184 | <1% | ND/1975 | <1% | ND/2004 | <1% | ||
| PB1.87 A→G | 1 | ND/387 | <1% | ND/440 | <1% | ND/439 | <1% | ND/451 | <1% | ND/417 | <1% | ND/439 | <1% | |
| 2 | 26/327 | 8,0% | 32/395 | 8,1% | ND/351 | <1% | 33/385 | 8,6% | ND/395# | <1% | ND/351 | <1% | ||
| 3 | ND/617 | <1% | ND/1133 | <1% | ND/1136 | <1% | ND/622 | <1% | ND/1133 | <1% | ND/1136 | <1% | ||
| PB1.728 C→A | 1 | ND/750 | <1% | ND/832 | <1% | ND/836 | <1% | ND/853 | <1% | ND/832 | <1% | ND/836 | <1% | |
| 2 | ND/776 | <1% | 52/928 | 5,6% | ND/829 | <1% | ND/888 | <1% | ND/912## | <1% | ND/829 | <1% | ||
| 3 | ND/2459 | <1% | ND/4290 | <1% | ND/4293 | <1% | ND/2471 | <1% | ND/4287 | <1% | ND/4292 | <1% | ||
| PB1.730 C→T | 1 | ND/742 | <1% | ND/824 | <1% | ND/826 | <1% | ND/844 | <1% | ND/824 | <1% | ND/826 | <1% | |
| 2 | ND/767 | <1% | 57/1008 | 5,7% | ND/832 | <1% | ND/893 | <1% | ND/1008# | <1% | ND/832 | <1% | ||
| 3 | ND/2339 | <1% | ND//4286 | <1% | ND/4289 | <1% | ND/2464 | <1% | ND/4285 | <1% | ND/4284 | <1% | ||
| PB1.883 G→C | 1 | ND/942 | <1% | ND/997 | <1% | ND/997 | <1% | ND/1016 | <1% | ND/997 | <1% | ND/997 | <1% | |
| 2 | ND/1689 | <1% | ND/1856 | <1% | ND/1760 | <1% | ND/1867 | <1% | ND/1856 | <1% | ND/1760 | <1% | ||
| 3 | ND/2479 | <1% | 47/690 | 6,8% | ND/3681 | <1% | ND/2635 | <1% | ND/690## | <1% | ND/3697 | <1% | ||
| PA.49 G→C | 1 | ND/103 | <1% | 6/117 | 5,1% | ND/115 | <1% | ND/113 | <1% | ND/117# | <1% | ND/115 | <1% | |
| 2 | ND/337 | <1% | ND/435 | <1% | ND/392 | <1% | ND/441 | <1% | ND/434 | <1% | ND/392 | <1% | ||
| 3 | ND/111 | <1% | ND/207 | <1% | ND/204 | <1% | ND/113 | <1% | ND/206 | <1% | ND/206 | <1% | ||
| PA.82 C→T | 1 | ND/155 | <1% | ND/180 | <1% | ND/177 | <1% | ND/179 | <1% | ND/180 | <1% | ND/177 | <1% | |
| 2 | ND/695 | <1% | ND/809 | <1% | ND/745 | <1% | ND/797 | <1% | ND/809 | <1% | ND/745 | <1% | ||
| 3 | ND/64 | <1% | ND/247 | <1% | 30/248 | 12,1% | ND/74 | <1% | ND/247 | <1% | 30/248 | 12,1% | ||
| NS.811 G→T | 1 | ND/221 | <1% | 17/270 | 6,3% | ND/249 | <1% | ND/261 | <1% | ND/270# | <1% | ND/249 | <1% | |
| 2 | ND/2452 | <1% | ND/2725 | <1% | ND/2557 | <1% | ND/2742 | <1% | ND/2725 | <1% | ND/2557 | <1% | ||
| 3 | ND/3117 | <1% | ND/4125 | <1% | ND/4139 | <1% | ND/3188 | <1% | ND/4124 | <1% | ND/4142 | <1% | ||
*Locations containing mSNV detections in the DPP3 mSNV analysis of the bam files but not in the original DPPs; Locations containing ≥1% mSNVs that could be reproduced by deleting DPP3s default ‘Direction and position filters’ with those exactly reproduced (#) and those approximately reproduced but with different coverages and/or variants (##).