As I said in a Jewish genealogy Facebook group...

I’m pretty sure that, for example, Ancestry does, as I have gotten different DNA results on other websites and have records proving that other sides of my family were open Jews. Also, Ancestry’s reference panel for single origin people in general is highly unbalanced, and in the beta version, many Ashkenazi Jews — including my dad — were mistaken as Eastern European.   In my case, there are two other issues: I am mixed, and my mom has – as far as I know – mostly gentile heritage. I also know quite a few of Dad‘s cousins do show ad having European Jewish atDNA, and — as I said – atDNA science is relatively new. Another example is 23andme, which has only a 50% confidence rate, which I found out when I read my dad‘s results and read the blurb or even the 23andme white paper – and I have to go back and check, though I certainly remember the 50% confidence rate. As for Genesis at GEDMatch, multiple tests have shown that I do have Middle Eastern, Mediterranean, “Palestinian”, and related atDNA. Additionally, atDNA is not inherited equally even by siblings, as it works differently from YDNA and mtDNA.

PS I had ancestors with exclusively-Jewish surnames in Eastern Europe, including “Munka”.