New York City's population is around 8.5 M, and more then 10,000 people there have died from from the virus so far (https://www.nytimes.com/2020/04/14/nyregion/new-york-coronav...). That puts the toll over 0.1 %.
You’re citing numbers released by the city where they haven’t confirmed cases, so it doesn’t answer the OP’s question.