Scanning superconducting quantum interference device measurements reveal large-scale modulations of the superfluid density and the critical temperature in superconducting Nb, NbN, and underdoped YBa 2 Cu 3 O 7−δ films deposited on SrTiO 3 (STO). We show that these modulations are a result of the STO domains and domain walls, forming below the 105 K structural phase transition of STO. We found that the flow of normal current, measured above the superconducting transition, is also modulated over the same domain structure, suggesting a modified carrier density. In clean STO, domain walls remain mobile down to low temperatures. Modulated superconductivity over mobile channels offers the opportunity to locally control superconducting properties and better understand the relations between superconductivity and the local structure.