Table 2.
Nucleotide differences between the AH187-E and AH187-R strainsa
| ntb | AH187-Ec | AH187-R |
|---|---|---|
| ORF1a gene nt205–13356 | ||
| 274 | G | T |
| 576 | W | T |
| 747 | Y | C |
| 1342 | G | C |
| 1474 | G | A |
| 2074 | C | T |
| 2224 | R | G |
| 2778 | R | G |
| 3112 | Y | C |
| 3723 | Y | C |
| 3836 | K | G |
| 3843 | T | C |
| 3948 | Y | T |
| 3993 | Y | C |
| 4215 | T | C |
| 4506 | Y | C |
| 4749 | T | C |
| 4961 | G | A |
| 5487 | K | T |
| 5541 | Y | C |
| 5559 | C | T |
| 5721 | G | T |
| 6465 | G | A |
| 6476 | C | A |
| 6672 | T | C |
| 7317 | T | C |
| 7854 | Y | T |
| 7947 | K | G |
| 7977 | Y | T |
| 8223 | T | A |
| 8281 | M | A |
| 8436 | T | C |
| 8575 | G | A |
| 8746 | Y | C |
| 8982 | C | T |
| 9402 | Y | C |
| 9633 | C | T |
| 9948 | Y | T |
| 10263 | R | A |
| 10365 | A | G |
| 10673 | Y | C |
| 10860 | C | T |
| 11196 | Y | T |
| 11223 | T | C |
| 11259 | Y | C |
| 11280 | Y | C |
| 11308 | C | T |
| 11439 | R | G |
| 11844 | C | T |
| 12558 | W | A |
| 12609 | Y | C |
| 12729 | R | G |
| 12861 | A | C |
| 12996 | A | G |
| 13017 | C | T |
| 13091 | G | A |
| ORF1b gene nt13335–21488 | ||
| 13418 | Y | T |
| 13631 | R | A |
| 14429 | Y | T |
| 14513 | R | A |
| 14651 | W | T |
| 14672 | Y | C |
| 14744 | T | C |
| 15020 | A | G |
| 15095 | T | C |
| 15170 | T | G |
| 15285 | Y | C |
| 15513 | W | T |
| 16193 | Y | C |
| 16505 | K | G |
| 16814 | T | G |
| 16847 | T | C |
| 16925 | Y | C |
| 17018 | C | T |
| 17882 | R | G |
| 18311 | R | G |
| 18479 | W | T |
| 18515 | Y | C |
| 19478 | C | T |
| 19556 | G | A |
| 19631 | T | C |
| 19643 | A | C |
| 20208 | G | T |
| 20687 | R | G |
| 20795 | Y | T |
| 20828 | R | G |
| 20927 | K | G |
| 21236 | G | A |
| 32 kDa NSP gene nt21498–22334 | ||
| 21563 | T | C |
| 21662 | Y | T |
| 21719 | Y | T |
| 21842 | Y | T |
| 21962 | Y | C |
| 21999 | M | C |
| 22025 | M | A |
| HE gene nt22346–23620 | ||
| 22559 | K | G |
| 22600 | Y | T |
| 23056 | T | C |
| 23444 | C | T |
| 23446 | C | T |
| 23494 | T | C |
| S gene nt23635–27726 | ||
| 23704 | G | C |
| 23835 | Y | T |
| 23890 | T | C |
| 24264 | Y | C |
| 24426 | Y | C |
| 24690 | C | T |
| 25130 | G | A |
| 25135 | T | C |
| 25160 | A | C |
| 25163 | C | G |
| 25167 | T | C |
| 25296 | Y | C |
| 25305 | Y | C |
| 25359 | Y | C |
| 25484 | Y | C |
| 25862 | K | T |
| 28595 | G | A |
| 26215 | C | T |
| 26718 | Y | C |
| 27030 | Y | T |
| 27138 | W | A |
| 27156 | Y | T |
| 27173 | R | G |
| 27204 | Y | T |
| 27219 | T | C |
| 27220 | A | T |
| 27360 | Y | T |
| 27531 | W | A |
| 27663 | Y | T |
| 27720 | M | A |
| 4.9 kDa NSP gene nt27716–27805 | ||
| 27746 | R | A |
| 27812 | Y | T |
| 27842 | G | T |
| 4.8 kDa NSP gene nt27883–28020 | ||
| 27893 | C | T |
| 27947 | C | T |
| 28044 | G | A |
| 28073 | Y | C |
| 28078 | K | G |
| M gene nt28685–29377 | ||
| 28716 | T | A |
| 28855 | Y | C |
| 29110 | Y | C |
| N gene nt29387–30733 | ||
| 29532 | C | T |
| 29680 | R | G |
| 29702 | M | C |
| 29823 | W | A |
| 30166 | R | A |
| 30718 | Y | C |
| 3′ UTR nt30734–30894 | ||
| 30767 | Y | C |
aThe two genomic sequences were aligned with ClustalW program in Lasergene software (DNASTAR Inc). Uniform length of 30894 nt was achieved after trimming sequence ends. bPositions for nucleotide changes in individual genes are shown. cThe ambiguous nucleotides are in bold italics and underlined.