If I understand correctly, "each pair" is referring to each pair of methods. The mean of method 1 does does differ significantly from that of method 2. In this case, since there are only two methods tested, there is only one pair to test, so I can see why the wording might be confusing since it sounds as if you are doing multiple tests. It is worded that way because, if you had over two methods, you would need to do multiple tests (preferably Tukey's in that case), in which case it would show you the results of "comparisons for each pair using student's t-test." On that note, I like turning on the "connecting letters report" option when you have many comparisons (again, preferably using a more conservative approach like Tukey's) because those letters are, in my field, what usually make it into the publication since they show individual mean differences so clearly and obviously in most figure types.