Open Access
Table 3
Intra-assemblage substitutions of assemblage E at the bg, gdh, and tpi loci.
| Subtypes | Nucleotide at position | GenBank ID | No. positive |
|||||||
|---|---|---|---|---|---|---|---|---|---|---|
| Fecal sample | Environmental sample | |||||||||
| bg | ||||||||||
| 53 | 65 | 119 | 170 | 381 | 413 | |||||
| Ref. sequence | C | C | C | A | G | T | KT922248 | |||
| E1 | – | – | – | – | – | C | MK610388 | 38 | 2 | |
| E2 | – | T | – | – | – | – | KP635113 | 1 | 0 | |
| E3 | – | T | – | – | – | C | KP635114 | 3 | 0 | |
| E5 | – | – | – | – | – | – | KY633466 | 27 | 1 | |
| E11 | – | T | – | G | – | C | KY633471 | 1 | 0 | |
| E47 | – | – | T | – | – | – | OP142427 | 3 | 0 | |
| E48 | T | – | – | – | – | – | OP142426 | 1 | 0 | |
| E49 | – | – | – | – | T | C | OP142425 | 1 | 0 | |
| gdh | ||||||||||
| 21 | 129 | 168 | 243 | 318 | 333 | 384 | ||||
| Ref. sequence | C | C | G | C | C | A | C | KY711410 | ||
| E50 | – | – | – | – | – | – | – | KY711410 | 25 | 1 |
| E46 | – | – | A | T | – | – | – | MT123526 | 1 | 0 |
| E51 | – | – | A | – | – | – | – | AB692774 | 33 | 1 |
| E52 | – | – | – | – | A | – | – | KP635107 | 1 | 0 |
| E53 | – | G | A | – | – | – | – | OP142428 | 5 | 0 |
| E54 | T | – | – | – | – | – | – | OP142429 | 2 | 0 |
| E55 | – | – | – | T | – | – | – | OP142430 | 2 | 0 |
| E56 | – | – | A | – | – | G | T | OP142431 | 0 | 1 |
| tpi | ||||||||||
| 91 | 168 | 262 | ||||||||
| Ref. sequence | G | C | T | MF095054 | ||||||
| E57 | – | – | – | MF095054 | 1 | 0 | ||||
| E58 | A | – | – | MH230888 | 28 | 1 | ||||
| E59 | A | – | C | MK442915 | 33 | 2 | ||||
| E60 | A | T | C | OP156823 | 5 | 0 | ||||
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