Table 1. Taxa and sample location of species included in this study.
| Subfamily | Species | Sample location | No. of sites (bp) |
| Leuciscinae | Mylopharyngodon piceus | Wuhan, Hubei Prov. | 57624 |
| Ctenopharyngodon idella | Wuhan, Hubei Prov. | 62541 | |
| Squaliobarbus curriculus | Taoyuan, Hunan Prov. | 57357 | |
| Ochetobius elongatus | Taoyuan, Hunan Prov. | 56865 | |
| Luciobrama macrocephalus | Taoyuan, Hunan Prov. | 48501 | |
| Elopichthys bambusa | Taoyuan, Hunan Prov. | 55421 | |
| Hypophthalmichthyinae | Hypophthalmichthys molitrix | Wuhan, Hubei Prov. | 61271 |
| Hypophthalmichthys nobilis | Wuhan, Hubei Prov. | 62371 | |
| Xenocyprinae | Xenocypris argentea | Taoyuan, Hunan Prov. | 53348 |
| Cultrinae | Culter alburnus | Taoyuan, Hunan Prov. | 58803 |
| Megalobrama amblycephala | Wuhan, Hubei Prov. | 60738 | |
| Danioninae | Opsariichthys bidens | Taoyuan, Hunan Prov. | 55835 |
| Danio rerio | -------- | 56378 |
Note: genome sequences of Danio rerio were retrieved from GenBank or Ensembl database. Species of Cyprinidae grouped on the basis of traditional subfamily classifications. One individual per species was sampled.