TABLE 1.
Differences in nucleotide and predicted amino acid sequences between HC-TN and other genotype 1a strains
| Genomic region | nt positiona | No. (%) of nt differences
|
aa positiona | No. (%) of aa differences
|
||||||
|---|---|---|---|---|---|---|---|---|---|---|
| H77C | HCV-1 | HC-J1 | HCV-UK | H77C | HCV-1 | HC-J1 | HCV-UK | |||
| 5′ UTR | 1-341 | 1 (0.3) | 0 (0.0) | 2 (0.6) | 2 (0.6) | |||||
| Core | 342-914 | 7 (1.2) | 13 (2.3) | 11 (1.9) | 15 (2.6) | 1-191 | 1 (0.5) | 3 (1.6) | 3 (1.6) | 3 (1.6) |
| E1 | 915-1490 | 24 (4.2) | 34 (5.9) | 43 (7.5) | 39 (6.8) | 192-383 | 6 (3.1) | 9 (4.7) | 11 (5.7) | 9 (4.7) |
| E2 | 1491-2579 | 70 (6.4) | 76 (7.0) | 81 (7.4) | 150 (13.8) | 384-746 | 25 (6.9) | 28 (7.7) | 28 (7.7) | 48 (13.2) |
| HVR1 | 1491-1571 | 12 (14.8) | 13 (16.0) | 15 (18.5) | 32 (39.5) | 384-410 | 7 (25.9) | 9 (33.3) | 8 (29.6) | 15 (55.6) |
| p7 | 2580-2768 | 9 (4.8) | 10 (5.3) | 11 (5.8) | 22 (11.6) | 747-809 | 2 (3.2) | 3 (4.8) | 4 (6.3) | 5 (7.9) |
| NS2 | 2769-3419 | 36 (5.5) | 42 (6.5) | 47 (7.2) | 65 (10.0) | 810-1026 | 7 (3.2) | 8 (3.7) | 9 (4.1) | 18 (8.3) |
| NS3 | 3420-5312 | 86 (4.5) | 90 (4.8) | 109 (5.8) | 143 (7.6) | 1027-1657 | 12 (1.9) | 14 (2.2) | 16 (2.5) | 18 (2.9) |
| NS4A | 5313-5476 | 8 (4.8) | 9 (5.5) | 9 (5.5) | 17 (10.4) | 1658-1711 | 1 (1.9) | 1 (1.9) | 1 (1.9) | 3 (5.6) |
| NS4B | 5477-6257 | 32 (4.1) | 27 (3.5) | 44 (5.6) | 67 (8.6) | 1712-1972 | 6 (2.3) | 4 (1.5) | 9 (3.4) | 11 (4.2) |
| NS5A | 6258-7600 | 67 (5.0) | 74 (5.5) | 86 (6.4) | 108 (8.0) | 1973-2420 | 23 (5.1) | 21 (4.7) | 25 (5.6) | 30 (6.7) |
| NS5B | 7601-9374 | 53 (3.0) | 62 (3.5) | 73 (4.1) | 101 (5.7) | 2421-3011 | 5 (0.8) | 9 (1.5) | 8 (1.4) | 19 (3.2) |
| ORF | 342-9374 | 392 (4.3) | 437 (4.8) | 514 (5.7) | 727 (8.0) | 1-3011 | 88 (2.9) | 100 (3.3) | 114 (3.8) | 164 (5.4) |
| 3′ UTR | 9375-9599 | |||||||||
| Variable region | 9375-9417 | 1 (2.3) | 0 (0.0) | 3 (7.0) | NAb | |||||
| Conserved region | 9499-9599 | 0 (0.0) | NA | NA | NA | |||||
a
The nucleotide and predicted amino acid positions correspond to those of pHC-TN.
b
NA, not available.