Table 1. Number of variants produced by different filtering steps (Appendix S1).
Condition N SNPs+ indels Only SNPs SNPs_HF SNPs_HF_NMD SNPs_HF_NMD_NLD SNPs_HF_NMD_NLD_0.5HO
A. cantabrica supercontig (with Z4) 34 62132 49523 36138 7514 1824 859
A. cantabrica supercontig (without Z4) 33 61987 49412 36042 17093 3880 1943
A. cantabrica intron 33 8760 6964 5218 1944 869 462
A. halleri supercontig 6 25253 20827 17261 13829 966 -
A. halleri intron 6 2759 2253 1788 1319 273 -