Explanation:

Had Anil been on time he would not have missed the train.
In option 1) "would not have been" cannot be used because the sentence is not in perfect continues tense.
In option 2) "had not" cannot be used becase had already used in the sentence as a helping verb.
In option 3) "will not have" cannot be used because sentence is in past tense.
In option 4) "would not have" should be used to fill the blank.
Hence, option 4 is the correct answer.