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| Quality Filtering Steps | Number of ddRAD Loci | % |
|---|---|---|
| Populating observed ddRAD loci for 42 animals | 7,576,300 | 100.0 |
| Removing ddRAD loci below the minimum depth of 5× | 7,456,091 | 98.4 |
| Removing ddRAD loci below the log likelihood threshold of −8 | 1,989,000 | 26.3 |
| Removing ddRAD loci below the minimum constraint of 32 (75%) individuals | 324,564 | 4.3 |
| Putative biallelic SNP (MAF ≥0.05) | 98,166 | 1.3 |
