"Introduction of flexi fare system will badly affect passengers from Kerala," Vijayan said in a statement.
Introduction of the new system in Rajadhani, Shatabdi and Duronto trains was only the first step and later it would be extended to other trains also, he said.
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It was a clear exploitation of rail passengers, Vijayan added.
Chennithala also demanded rollback of the new system. The Railways move virtually amounted to looting the people, he alleged.
"It is an anti-people decision of Railways," he said in a statement.
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