The NIA investigators visited the madrasa at Simulia under Mangalkot police station, about 50 km from Khargragah, for the second time since yesterday.
The sleuths took help from a local imam to know about the books, some of which were written in Arbi and Urdu, the police said adding some Jehadi literature were also seized.
The 12 trunks would be opened to check its contents.
The man would be interrogated.
The locked yellow car, with 'Indian Army' written on both its front and rear wind screens, would also be searched.
It was being suspected that the car was used to ferry the two arrested woman, Razia and Amina, between the madrasa and the house at Khagragarh where the blast took place on October 2 killing Shakil Ahmed and Sovan Mandal, suspected members of Jamat-ul-Mujahideen, Bangladesh, and injured one.
The NIA might also search a nearby pond using divers to check if any item was hidden under water, the police said.
The NIA men who have set up a temporary camp at a nearby BDO office also measured a piece of land with the help of employees of the block land revenue office (BLRO).
Six people, including the two women, were arrested in connection with the explosion in West Bengal while six more people were arrested in Assam.
The NIA, which has taken over the investigation of Khagragarh blast case on October 10, has sent in Burdwan, Kolkata, Nadia and Assam in connection with the investigation.
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