Fifth-placed Cerezo are chasing a Champions League place and had led through Tatsuya Yamashita (11) only for Antonio Dutra to level three minutes later.
That was the end of the scoring but a draw was enough for Yokohama to extend their lead after Urawa Red Diamonds were beaten 3-2 at FC Tokyo.
Substitute Sota Hirayama scored the winner in injury-time after Urawa had battled back from a 2-0 deficit.
Quickfire goals from Tomoaki Makino (51) and Daisuke Nasu (53) cancelled out first-half strikes from Jang Hyun-soo (eight) and Masato Morishige (36).
All of the top five failed to win as Sanfrecce Hiroshima and Kashima Antlers suffered away defeats.
Kengo Nakamura (10) and Calixto Renato (45) condemned Sanfrecce to a 2-0 reverse at Kawasaki Frontale while Vantforet Kofu pulled clear of the drop zone as they put three past Kashima without reply.
Yoshifumi Kashiwa (seven), Sho Sasaki (31) and Anderson Patrick (44) got the goals.
Vegalta Sendai ended a four-game winless league run by thumping rock-bottom Oita Trinita 6-0.
Makoto Kakuda netted a double with Ryang Yong-gi, Atsushi Yanagisawa, Hironori Ishikawa and Wilson also on target.
Genki Omae's injury-time winner earned Shimizu S-Pulse a comeback 2-1 win at home to Nagoya Grampus Eight.
Takahiro Masukawa sent Nagoya ahead on 52 minutes but a quick reply from Dzenan Radoncic turned into Omae's winner.
Albirex Niigata and Sagan Tosu were both 1-0 winners over Omiya Ardija and Shonan Bellmare respectively.
Atomu Tanaka (74) grabbed Niigata's goal while a Tsuyoshi Shimamura own goal in injury time decided Tosu's win.