Table 3 Sequence coverage of rotavirus genome segments using viral capture and random amplification
Sample ID | GP type | Genome Coverage (%) | VP7 | VP4 | VP6 | VP1 | VP2 | VP3 | NSP1 | NSP2 | NSP3 | NSP4 | NSP5 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Segment length and coverage (%) | |||||||||||||
VN-0002 | G1P[8] | 98.49 | 1062 (100) | 2362 (100) | 1356 (100) | 3302 (100) | 2690 (100) | 2591 (100) | 1497 (92.9) | 1041 (98.3) | 1104 (100) | 701 (93.3) | 567 (85.0) |
VN-0006a | G1P[8] | 91.95 | 1012 (95.3) | 2338 (99.0) | 988 (72.9) | 3302 (100) | 2488 (92.5) | 2548 (98.3) | 1597 (99.1) | 919 (86.8) | 1104 (100) | 465 (61.9) | 300 (45.0) |
VN-0013 | G1P[8] | 99.61 | 1062 (100) | 2359 (99.9) | 1332 (98.2) | 3302 (100) | 2690 (100) | 2591 (100) | 1579 (98.0) | 980 (92.5) | 1101 (99.7) | 714 (95.1) | 606 (90.9) |
VN-0057 | G1P[8] | 97.54 | 978 (92.1) | 2328 (98.6) | 1294 (95.4) | 3302 (100) | 2690 (100) | 2575 (99.4) | 1514 (94.0) | 982 (92.7) | 1121 (101.5) | 626 (83.4) | 606 (90.9) |
VN-0030 | G1P[8] | 95.98 | 912 (85.9) | 2312 (97.9) | 1340 (98.8) | 3302 (100) | 2592 (96.4) | 2585 (99.8) | 1519 (94.3) | 814 (76.9) | 1104 (100) | 749 (99.7) | 579 (86.8) |
VN-0062 | G1P[8] | 91.79 | 919 (86.5) | 2345 (99.3) | 913 (67.3) | 3205 (97.1) | 2690 (100) | 2555 (98.6) | 1500 (93.1 | 835 (78.8) | 1104 (100) | 589 (78.4) | 375 (56.2 |
VN-0324 | G1P[8] | 94.57 | 1062 (100) | 2359 (99.9) | 1356 (100) | 3302 (100) | 2686 (99.9) | 2591 (100) | 1328 (82.4) | 563 (53.2 | 1049 (95.0) | 714 (95.1) | 537 (80.5) |
VN-0365 | G1P[8] | 93.87 | 961 (90.5) | 2359 (99.9) | 1204 (88.8) | 3302 (100) | 2690 (100) | 2591 (100) | 1539 (95.5) | 976 (92.2 | 1041 (94.3) | 530 (70.1) | 184 (27.6) |
VN-0299 | G1P[8] | 94.44 | 948 (89.3) | 2314 (98.0) | 1181 (87.1) | 3215 (97.4) | 2690 (100) | 2591 (100) | 1393 (86.5) | 962 (90.8) | 1008 (91.3) | 440 (58.6) | 0 (0) |
VN-0172a | G1P[8] | 88.00 | 956 (90.0) | 2141 (90.6) | 1043 (76.9) | 3233 (97.9) | 2629 (97.7) | 2535 (97.8) | 1416 (87.9) | 570 (53.8) | 1041 (94.3) | 252 (33.6) | 340 (51.0) |
VN-0341a | G1P[8] | 82.54 | 1012 (95.3) | 2338 (99.9) | 988 (72.9) | 3302 (100) | 2488 (92.5) | 2548 (98.3) | 1009 (62.6) | 741 (70.0) | 943 (85.4) | 72 (9.6) | 0 (0) |
VN-0221a | UT | 79.00 | 867 (81.6) | 1945 (82.3) | 950 (70.1) | 3154 (95.5) | 2137 (79.4) | 2308 (89.1) | 1483 (92.1 | 539 (50.9) | 700 (63.4) | 461 (61.4) | 0 (0) |
VN-0186 | UT | 99.07 | 1062 (100) | 2359 (99.9) | 1356 (100) | 3302 (100) | 2690 (100) | 2591 (100) | 1556 (96.6) | 1059 (100) | 1041 (94.3) | 699 (93.1) | 667 (100) |
VN-0175 | UT | 91.01 | 950 (89.5) | 2362 (100) | 1123 (82.8) | 3302 (100) | 2690 (100) | 2591 (100) | 1350 (83.8) | 717 (67.7) | 1049 (95.0) | 675 (89.9) | 64 (9.6) |
VN-0181a | UT | 81.64 | 780 (73.4) | 1678 (71.0) | 1170 (86.3) | 3123 (94.6) | 2142 (79.6) | 2436 (94.0) | 1418 (88.0) | 827 (78.1 | 935 (84.7) | 432 (57.5) | 667 (100) |
VN-0222 | G2P[4] | 94.80 | 1031 (97.1) | 2362 (100) | 1324 (97.6) | 3302 (100) | 2690 (100) | 2591 (100) | 1455 (90.3) | 898 (84.8) | 1036 (93.8) | 655 (87.2 | 210 (31.5) |
VN-0321 | G2P[4] | 91.40 | 1044 (98.3) | 2330 (98.6) | 1144 (84.4) | 3302 (100) | 2637 (98.0) | 2591 (100) | 1466 (91.0) | 860 (81.2 | 1058 (95.8) | 350 (46.6) | 176 26.4) |
VN-0326 | G2P[4] | 90.63 | 952 (89.6) | 2335 (98.9) | 1083 (79.9) | 3302 (100) | 2690 (100) | 2591 (100) | 1263 (78.4) | 649 (61.3) | 960 (87.0) | 589 (78.4) | 362 (54.3) |
VN-0058a | G26P[19] | 82.00 | 800 (75.3) | 2359 (99.9) | 853 (62.9) | 3302 (100) | 2400 (89.2) | 2490 (96.1) | 304 (18.9) | 890 (84.0) | 709 (64.2) | 641 (85.4) | 331 (49.6) |
VN-0132a | G3P[4] | 81.00 | 953 (89.7) | 1704 (72.1) | 666 (49.1) | 3300 (99.9) | 2731 (101.5) | 2504 (96.6) | 1312 (81.4) | 478 (45.1 | 1026 (92.9) | 307 (40.9) | 0 (0) |
VN-1221 | G2P[4] | 93.83 | 1020 (96.0) | 2334 (98.8) | 1356 (100) | 3290 (99.6) | 2596 (96.5) | 2471 (95.4) | 1374 (85.3) | 1040 (98.2 | 988 (89.5) | 751 (100) | 191 (28.6) |
VN-0074 | G1P[8] | 92.09 | 1007 (94.8) | 2062 (87.3) | 1356 (100) | 3067 (92.9) | 2735 (101.7) | 2093 (80.8) | 1566 (97.2 | 1058 (99.9) | 1074 (97.3) | 574 (76.4) | 495 (74.2) |
VN-0140 | G1P[8] | 94.78 | 990 (93.2) | 2193 (92.8) | 1356 (100) | 3302 (100) | 2649 (98.5) | 2452 (94.6) | 1375 (85.4) | 1059 (100) | 985 (89.2 | 565 (75.2 | 660 (99.0) |
VN-0196 | G9P[4] | 91.12 | 997 (93.9) | 2281 (96.6) | 1356 (100) | 3237 (98.0) | 2707 (100) | 1925 (74.3) | 1502 (93.2 | 966 (91.2 | 1012 (91.7) | 481 (64.0) | 444 (66.6) |
VN-3096 | G1P[4] | 95.51 | 1029 (96.9) | 2334 (98.8) | 1356 (100) | 3302 (100) | 2641 (98.2) | 2505 (96.7) | 1390 (86.3) | 1059 (100) | 966 (87.5) | 478 (63.6) | 662 (99.3) |
VN-1604 | G2P[4] | 92.49 | 1034 (97.4) | 2334 (98.8) | 1356 (100) | 3252 (98.5) | 2619 (97.4) | 2347 (90.6) | 1150 (71.4) | 1056 (99.7) | 1005 (91.0) | 749 (99.7) | 260 (38.9) |