TABLE 1.
Workflow of the analysis
| A. millepora | Pocillopora | ||
|---|---|---|---|
| P. damicornis | P. acuta | ||
| Sampling | 370 ind. | 360 ind. | |
| Microsatellite | – | 128 ind. | 150 ind. |
| DArT‐seq | 188 ind. × 57,374 SNPs | 128 ind. × 70,640 SNPs | 150 ind. × 70,640 SNPs |
| BLAST against reference | 188 ind. × 47,529 SNPs | 127 ind. × 48,049 SNPs | 145 ind. × 48,049 SNPs |
| Filtering (Missing values, MAF, MGF, LD, clonality) | 167 ind. × 11,935 SNPs | 118 ind. × 7,895 SNPs | 110 ind. × 8,343 SNPs |
For each of the species of interest (Acropora millepora, Pocillopora damicornis, Pocillopora acuta), we report the number of individuals (ind.) and single nucleotide polymorphisms (SNPs) obtained or retained after each of the various steps of the workflow.
MAF=minor allele frqeuency, MGF=major genotype frequency, LD=linkage disequilibrium.