The Thue–Morse sequence is a prototypical automatic sequence found in diverse areas of mathematics, and in computer science. We study occurrences of factors w within this sequence, or more precisely, the sequence of gaps between consecutive occurrences. This gap sequence is morphic; we prove that it is not automatic as soon as the length of w is at least $2$ , thereby answering a question by J. Shallit in the affirmative. We give an explicit method to compute the discrepancy of the number of occurrences of the block $\mathtt {01}$ in the Thue–Morse sequence. We prove that the sequence of discrepancies is the sequence of output sums of a certain base- $2$ transducer.