Gene tracks, 24mer mappability tracks as well as CTCF peaks are displayed above the contact matrices. (A) Example at chr6:5,350,000–33,850,000. Even in the lack of obviously low mappable contact gaps, multi-reads can enhance the existing interaction signal and reveal detectable TAD structures supported by CTCF peaks. (B) Example on chr9:15,150,000–43,650,000. TAD structure, supported by CTCF peaks at the TAD boundaries, becomes detectable as multi-reads fill in the gap in the contact matrix. Red squares at the left bottom of the matrices indicate the color scale.