Rachůnek played his junior hockey with AC ZPS Zlín Jr. of the Czech Junior League from 1995 to 1997. In his rookie season in 1995–96, Rachůnek recorded eight goals and 19 points in 38 games. In his second season with the club in 1996–97, Rachůnek scored two goals and 13 points in 27 games. In the 1997 NHL Entry Draft, the Ottawa Senators selected Rachůnek in the ninth round, 229th overall.\n', '

In 1997–98, Rachůnek moved to Zlín of the Czech Extraliga. In his first season with the club, he scored a goal and three points in 27 games. In 1998–99, Rachůnek improved his offensive numbers to 3 goals and 12 points in 39 games, as well as accumulating 88 penalty minutes, helping Zlín reach the playoffs. In six playoff games, Rachůnek was held pointless.\n', '

Rachůnek made his North American debut with the Grand Rapids Griffins of the International Hockey League (IHL) in 1999–2000, which was the Ottawa Senators\' top minor league affiliate. In 62 games with the Griffins, Rachůnek had 6 goals and 26 points, helping Grand Rapids earn a playoff berth. In nine post-season games, Rachůnek had five assists.\n', '

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