The warship's collision with the Besiktas-M took place late the previous day while the carrier was operating near Port Said in Egypt, US Sixth Fleet spokesperson Commander Timothy Gorman said in a statement.
"The collision did not endanger the Harry S. Truman (CVN 75) as there are no reports of flooding or injuries. The propulsion plants are unaffected and in a safe and stable condition," Gorman said, adding that the incident was under investigation.
The statement did not mention the condition of the Besiktas-M after the collision.
Shipping websites listed the merchant ship as being a bulk carrier that flies the Panamanian flag.
The United States deploys aircraft carriers -- massive warships that are crewed by thousands of sailors and which carry dozens of planes -- in areas around the world.
In December, two US Navy pilots safely ejected after the F/A-18 warplane they were flying off the Truman was mistakenly shot down over the Red Sea by a US guided missile cruiser.
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