Table 1.

Differences between two clustering methods

	Original Paraclu	RECLU
Threshold to discard clusters	Number of tags in the cluster	Tag per million (TPM) per base
Algorithm to calculate stabilities	Ratio of the maximum d to the minimum d	Sum of stabilities of accumulated clusters at the site
Evaluation of reproducibility	NA	IDR
Consensus cluster	Extracting the largest cluster at each site	Clusters at the top and bottom of the hierarchy