Table 3.
Pair-wise comparison of divergent nucleotide positions among the six BCoVsa
| ntb | AH65-E | AH65-E-TC | AH65-R | AH65-R-TC | AH187-E | AH187-R |
|---|---|---|---|---|---|---|
| 5′ UTR nt1–204 | ||||||
| 53 | C | C | T | T | C | C |
| ORF1a gene nt205–13356 | ||||||
| 274 | G | G | G | G | G | T |
| 576 | T | T | T | T | W | C |
| 747 | C | C | C | C | Y | C |
| 1137 | G | A | A | A | G | G |
| 1209 | C | T | T | T | C | C |
| 1334 | A | A | G | G | A | A |
| 1342 | G | G | G | G | G | C |
| 1474 | G | G | G | G | G | A |
| 1596 | C | T | T | T | T | T |
| 2074 | C | C | C | C | C | T |
| 2086 | A | G | A | A | A | A |
| 2224 | A | G | G | G | R | G |
| 2703 | T | C | T | T | T | T |
| 2778 | A | G | G | G | R | G |
| 2928 | T | G | G | G | G | G |
| 3112 | T | C | C | C | Y | C |
| 3251 | C | T | C | C | C | C |
| 3480 | T | C | C | C | T | T |
| 3540 | C | C | C | C | T | T |
| 3723 | T | C | C | C | Y | C |
| 3836 | G | G | G | G | K | G |
| 3843 | T | T | T | T | T | C |
| 3948 | C | T | T | T | Y | T |
| 3993 | T | T | T | T | Y | C |
| 4215 | T | T | T | T | T | C |
| 4506 | T | T | T | T | Y | C |
| 4749 | T | T | T | T | T | C |
| 4776 | G | A | R | A | G | G |
| 4791 | T | C | C | C | C | C |
| 4926 | C | T | T | T | C | C |
| 4961 | G | G | G | G | G | A |
| 5097 | T | C | C | C | T | T |
| 5112 | C | C | C | C | T | T |
| 5310 | C | C | C | C | T | T |
| 5346 | G | A | A | A | A | A |
| 5487 | G | G | G | G | K | T |
| 5541 | T | T | T | T | Y | C |
| 5559 | C | C | C | C | C | T |
| 5624 | C | T | T | T | C | C |
| 5721 | G | G | G | G | G | T |
| 6303 | T | T | G | G | T | T |
| 6387 | T | T | C | C | T | T |
| 6465 | A | A | A | A | G | A |
| 6476 | C | C | C | C | C | A |
| 6508 | T | C | C | C | C | C |
| 6672 | T | T | T | T | T | C |
| 6741 | G | A | A | A | A | A |
| 6917 | T | T | C | C | C | C |
| 7023 | A | A | G | G | A | A |
| 7179 | C | C | T | T | C | C |
| 7227 | T | T | A | A | T | T |
| 7317 | T | T | T | T | T | C |
| 7638 | G | G | K | T | G | G |
| 7767 | G | G | R | R | G | G |
| 7854 | T | T | T | T | Y | T |
| 7947 | T | T | G | G | K | G |
| 7971 | T | T | Y | C | T | T |
| 7977 | T | T | T | T | Y | T |
| 8223 | T | T | T | T | T | A |
| ORF1a gene nt205--13356 | ||||||
| 8281 | C | A | A | A | M | A |
| 8436 | C | C | C | C | T | C |
| 8575 | G | G | G | G | G | A |
| 8746 | T | T | T | T | Y | C |
| 8910 | C | C | T | T | C | C |
| 8982 | C | C | C | C | C | T |
| 9402 | T | T | C | C | Y | C |
| 9633 | C | C | C | C | C | T |
| 9948 | C | T | T | T | Y | T |
| 10263 | G | G | A | A | R | A |
| 10365 | A | A | A | A | A | G |
| 10692 | T | T | C | C | T | T |
| 10726 | C | T | C | C | C | C |
| 10860 | C | T | T | T | C | T |
| 10987 | T | T | Y | T | T | T |
| 11155 | G | G | R | R | G | G |
| 11196 | T | T | Y | Y | Y | T |
| 11223 | C | C | C | C | T | C |
| 11259 | C | C | C | Y | T | C |
| 11280 | C | C | T | T | Y | C |
| 11282 | G | G | G | R | G | G |
| 11308 | T | T | T | T | C | T |
| 11322 | C | C | C | Y | C | C |
| 11439 | A | G | G | G | R | G |
| 11844 | T | T | T | T | C | T |
| 11853 | A | T | T | T | T | T |
| 12105 | C | C | T | T | C | C |
| 12138 | C | C | T | T | C | C |
| 12558 | A | A | T | T | W | A |
| 12609 | C | C | T | T | Y | C |
| 12729 | G | G | G | G | R | G |
| 12861 | C | C | A | A | A | C |
| 12996 | G | G | G | G | A | G |
| 13017 | C | C | C | C | C | T |
| 13091 | A | A | A | A | G | A |
| 13125 | A | A | C | C | A | A |
| ORF1b gene nt13335–21488 | ||||||
| 13418 | T | T | T | T | Y | T |
| 13631 | A | A | A | A | R | A |
| 14429 | T | T | T | T | Y | T |
| 14513 | G | A | A | A | R | A |
| 14648 | T | C | T | T | T | T |
| 14651 | T | T | T | T | W | T |
| 14672 | T | C | T | T | Y | C |
| 14744 | T | T | T | T | T | C |
| 15011 | T | C | T | T | T | T |
| 15020 | G | G | G | G | A | G |
| 15095 | T | T | T | T | T | C |
| 15170 | T | T | T | T | T | G |
| 15285 | T | C | C | C | Y | C |
| 15513 | A | T | T | T | W | T |
| 16193 | T | C | C | C | Y | C |
| 16198 | T | T | G | G | T | T |
| 16505 | T | G | G | G | K | G |
| 16589 | T | C | T | T | C | C |
| 16814 | T | T | T | T | T | G |
| 16847 | T | T | T | T | T | C |
| 16925 | T | T | T | T | Y | C |
| 17018 | C | C | C | C | C | T |
| 17078 | C | T | C | C | C | C |
| 17102 | G | A | G | G | G | G |
| ORF1b gene nt13335--21488 | ||||||
| 17882 | G | T | T | T | R | G |
| 17912 | C | T | T | T | C | C |
| 18311 | G | G | G | G | R | G |
| 18374 | C | T | T | T | C | C |
| 18479 | T | T | T | T | W | T |
| 18515 | T | C | C | C | Y | C |
| 18692 | C | T | T | T | C | C |
| 19478 | C | C | C | C | C | T |
| 19556 | A | A | A | A | G | A |
| 19631 | T | T | T | T | T | C |
| 19643 | C | C | C | C | A | C |
| 19691 | G | A | A | A | G | G |
| 20208 | T | G | G | G | G | T |
| 20321 | A | G | G | G | A | A |
| 20475 | C | T | T | T | C | C |
| 20687 | G | G | G | G | R | G |
| 20795 | T | T | T | T | Y | T |
| 20828 | A | G | G | G | R | G |
| 20927 | T | G | G | G | K | G |
| 21236 | G | G | G | G | G | A |
| 32 kDa NSP gene nt21498–22334 | ||||||
| 21563 | T | T | T | T | T | C |
| 21662 | T | T | T | T | Y | T |
| 21719 | T | T | T | T | Y | T |
| 21842 | T | T | T | T | Y | T |
| 21962 | C | C | C | C | Y | C |
| 21999 | A | C | C | C | M | C |
| 22025 | A | A | A | A | M | A |
| HE gene nt22346–23620 | ||||||
| 22559 | G | T | T | T | K | G |
| 22600 | T | C | C | C | Y | T |
| 22656 | A | A | G | G | A | A |
| 22826 | C | A | C | C | C | C |
| 23056 | T | T | T | T | T | C |
| 23137 | C | T | T | T | T | T |
| 23242 | C | T | T | T | T | T |
| 23384 | T | A | T | T | T | T |
| 23444 | C | C | C | C | C | T |
| 23446 | C | C | C | C | C | T |
| 23494 | T | T | T | T | T | C |
| S gene nt23635–27726 | ||||||
| 23664 | A | C | C | C | A | A |
| 23704 | C | G | G | G | G | C |
| 23706 | T | C | C | C | T | T |
| 23835 | T | C | C | C | Y | T |
| 23890 | T | T | T | T | T | C |
| 23971 | A | G | G | G | A | A |
| 24039 | C | T | T | T | C | C |
| 24165 | T | C | C | C | T | T |
| 24237 | T | C | C | C | T | T |
| 24264 | T | C | C | C | Y | C |
| 24426 | C | C | C | C | Y | C |
| 24690 | T | C | C | C | C | T |
| 24786 | T | C | C | C | T | T |
| 25130 | G | G | G | G | G | A |
| 25135 | T | T | T | T | T | C |
| 25160 | A | A | A | A | A | C |
| 25163 | C | C | C | C | C | G |
| 25167 | T | T | T | T | T | C |
| 25225 | G | A | A | A | G | G |
| 25296 | C | T | T | T | Y | C |
| 25305 | C | T | T | T | Y | C |
| 25345 | T | C | C | C | T | T |
| 25359 | C | T | T | T | Y | C |
| 25484 | C | C | C | C | Y | C |
| 25578 | T | C | C | C | T | T |
| 25862 | G | G | G | G | K | T |
| 25884 | A | C | C | C | C | C |
| 25895 | G | G | G | G | G | A |
| 26124 | C | T | T | T | C | C |
| 26215 | T | C | C | C | C | T |
| 26718 | C | T | T | T | Y | C |
| 26791 | C | A | C | C | C | C |
| 27030 | C | T | T | T | Y | T |
| 27138 | T | A | A | A | W | A |
| 27156 | C | T | T | T | Y | T |
| 27173 | A | G | G | G | R | G |
| 27204 | C | T | T | T | Y | T |
| 27219 | T | T | T | T | T | C |
| 27220 | A | A | A | A | A | T |
| 27360 | T | T | T | T | Y | T |
| 27399 | A | C | C | C | A | A |
| 27531 | A | T | T | T | W | A |
| 27585 | T | A | A | A | T | T |
| 27663 | C | T | T | T | Y | T |
| 27684 | T | A | A | A | T | T |
| 27720 | A | A | A | A | M | A |
| 4.9 kDa NSP gene nt27716–27805 | ||||||
| 27746 | A | G | G | G | R | A |
| 27798 | C | T | T | T | C | C |
| 27812 | T | C | C | C | Y | T |
| 27842 | G | G | G | G | G | T |
| 4.8 kDa NSP gene nt27883–28020 | ||||||
| 27893 | C | C | C | C | C | T |
| 27936 | T | C | C | C | T | T |
| 27943 | C | T | T | T | C | C |
| 27947c | C | T | T | T | C | T |
| 28044 | G | G | G | G | G | A |
| 28073 | T | C | C | C | Y | C |
| 28078 | G | G | T | T | K | G |
| 28087 | C | T | C | C | C | C |
| 12.7 kDa NSP gene nt28100–28429 | ||||||
| 28382 | A | G | G | G | G | G |
| M gene nt28685–29377 | ||||||
| 28716 | A | A | A | A | T | A |
| 28855 | T | C | C | C | Y | C |
| 29110 | T | C | C | C | Y | C |
| 29215 | T | T | C | C | T | T |
| N gene nt29387–30733 | ||||||
| 29532 | C | C | C | C | C | T |
| 29680 | A | G | G | G | R | G |
| 29702 | A | C | C | C | M | C |
| 29823 | T | A | A | A | W | A |
| 30118 | T | T | C | C | T | T |
| 30166 | G | A | A | A | R | A |
| 30535 | G | G | A | A | G | G |
| 30543 | C | C | T | T | C | C |
| 30639 | T | T | C | C | T | T |
| 30718 | T | C | C | C | Y | C |
| 3′ UTR nt30734–30894 | ||||||
| 30767 | C | C | C | C | Y | C |
| 30893 | T | T | T | G | T | T |
aThe six 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 common mutation from enteric to respiratory strains at nucleotide position 27947 is in bold italics and underlined.