In this paper we study the impact of degree correlations in the subgraph statistics of scale-free networks. In particular we consider loops, simple cases of network subgraphs which encode the redundancy of the paths passing through every two nodes of the network. We provide an understanding of the scaling of the clustering coefficient in modular networks in terms of the maximal eigenvector of the average adjacency matrix of the ensemble. Furthermore we show that correlations affect in a relevant way the average number of Hamiltonian paths in a three-core of real world networks. We prove our results in the two-vertex correlated hidden variable ensemble and we check the results with exact counting of small loops in real graphs.