Apparently Dory and One Piece is close to each other that Variety has Dory at No. 2 instead:
http://variety.com/2016/film/asia/japan-box-office-shin-godzilla-1201828401/
TOKYO — “Shin Godzilla,” Toho’s reboot of its signature series after a 12-year hiatus, handily won the weekend in Japan. Bowing on July 29 on 441 screens nationwide, the film earned $6.1 million on 412,000 admissions in its opening frame.
The score is more than triple the first weekend take of the previous series entry, “Godzilla: Final Wars,” which finished with $12.3 million in 2004. It is also nearly 23% better than the opening weekend box office of Gareth Edward’s 2014 Hollywood version “Godzilla,” which grossed $31 million in Japan.
Disney’s “Finding Dory” held onto second place for the second weekend, while driving its cumulative total to $31 million. Toei’s animation hit “One Piece Film: Gold” slipped to third place from number one, but its total box office rose to $22.4 million.
Opening at number four was Warner’s “The Legend of Tarzan,” which brought in $1.6 million on 124,000 admissions. The film is forecast to reach $10 million milestone.