The company said it identified unauthorized activity on the network that supports payment processing.
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The investigation is focused on card transactions from March 24 - April 18, 2017.
If you used your card at a Chipotle location during those dates you should closely monitor your bank statement and immediately notify the bank that issued the card about any questionable charges.
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To read the full statement click here.
Chipotle announced Tuesday a key sales figure rose more than expected in the first quarter as it works to recover from a series of food scares that had sent customers fleeing.
The Denver-based chain said sales rose 17.8 percent in the first three months of the year, following a 29.7 percent decline in the year-ago quarter. Sales at stores open at least 13 months had turned positive in December after dropping steeply starting in late 2015.
For the quarter, Chipotle earned $46.1 million, or $1.60 per share. Analysts had expected $1.29 per share, according to FactSet. Total revenue was $1.07 billion, topping the $1.05 billion analysts expected.
Chipotle shares rose 5 percent in after-hours trading.
The Associated Press contributed to this report.