According to one embodiment, there is provided a magnetic disk apparatus having a magnetic disk having magnetic dot lines each including magnetic dots arrayed at equal intervals in a down track direction, and a read/write head which uses a plurality of adjacent magnetic dot lines as one track and sequentially performs read and write on the magnetic dots included in the magnetic dot lines constituting the track, in which the magnetic dots included in each of the magnetic dot lines in each track of the magnetic disk are displaced in the down track direction from the magnetic dots included in the adjacent dot line in the track depending on a possible skew angle between the read/write head and the track so that the magnetic dots are sequentially accessed by the read/write head.