Table 3. Genetic similarity among individuals, as assessed by the percentage of polymorphic sites at which different sampled individuals have identical genotypes in each species.

In this analysis, SNPs showing evidence of more than two alleles were excluded.

	T. pusillus	H. riparius	T. rathkei
All biallelic SNPs	Total SNPS: 3,623 All adults identical: 3,399 (93.8%) Mother-offspring identical: 3,309 (91.3%) Two randomly selected adults identical: 3,525 (97.3%)	Total SNPs: 7,857 All adults identical: 504 (6.4%) Two randomly selected adults identical: 4,651 (59.2%)	Total SNPs: 9,977 Both adults identical: 2,859 (28.7%)
Biallelic SNPs in single-copy BUSCO transcripts	Total SNPS: 455 All adults identical: 442 (97.1%) Mother-offspring identical: 429 (94.3%) Two randomly selected adults identical: 448 (98.5%)	Total SNPs: 1,051 All adults identical: 23 (2.2%) Two randomly selected adults identical: 622 (59.2%)	Total SNPs: 1,071 Both adults identical: 301 (28.1%)