RahXephon

Set in the year 2015, just after Earth’s civilizations have been all but wiped out, Rahxephon finds a high school student named Ayato Kamina struggling to escape the rubble after an attack on his city left him trapped. Finally freeing himself from the debris, Ayato meets a girl named Reika Mishima who takes him to a secret sanctuary that houses the war’s civilian survivors. There, a humanoid mechanical weapon emerges from a black egg when he arrives bearing the same marking as one Ayato has on his body. It becomes apparent that Ayato is the only one who can pilot the weapon, and he soon realizes that he might be the only person able to defend the world from more destruction.

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In the year 2012 Japan was invaded by the Mu. Human-like beings from another dimension with blue blood.
In the year 2015 Tokyo is attacked by invaders, who are repelled by a humanoid weapon called a Dolem. During the chaos, Ayato Kamina meets Reika Mishima, a classmate.
During that same day, he is attacked by government officials but a woman named Haruka comes to his rescue, informing him that she was sent to get him by the Organization TERRA, and that Tokyo had been sealed in a time rift where time flows one third as fast as the outside world.
He flees from Haruka onto a train where he sees Reika once more. Arriving at the Room of Rah, he follows her to a tremendous egg where the Dolem Rahxephon is hatched from, and upon her singing his mother appears atop the Dolem that had stopped the TERRA Invasion. In the battle Ayato’s mother is injured, and Ayato flees Tokyo Jupiter with Haruka upon seeing his mother’s blue blood.

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Ayato Kamina may seem like an average boy in a devastated world, but after being captured by TERRA, a military organization set on saving the world from the Mu, an alien race set on “tuning” the world, he realizes he is an instrument in deciding the fate of humanity and piloting Rahxephon. Not only is Ayato the only person who can control the mecha, but he also has a terrible fate of his own. Holding onto memories of his old life and grasping to keep his own humanity, he must struggle in this new world and realize his true potential with Rahxephon.