Hi-C stripes called by Quagga are closely related to CTCF/RAD21 extrusion. For both 3′ and 5′ stripes, CTCF (A) and RAD21 (B) are enriched at GM12878 stripe anchors. (C) Quagga detects four times stripes as Stripenn and demonstrates the same CTCF enrichment pattern compared with Stripenn, in which 5′ stripe anchors are more enriched in positive-strand CTCF, and the 3′ stripes are more enriched in negative-strand CTCF.