A Novel Framework for the Identification and Analysis of Duplicons between Human and Chimpanzee

Table 4

Comparison of duplicons annotated by HMM and the duplication library. The numbers of (1) duplicons overlapped with each other, (2) duplicons overlapped with chimp-specific SDs, and (3) duplicons overlapped with chimp-specific CNVs are listed for each set of duplicons.

	Our duplicons	Duplib
Total No. of duplicons	56377	10291
No. of duplicons satisfying (1)	16819	2359
No. of duplicons satisfying (2)	3110	1048
No. of duplicons satisfying (1) and (2)	2554	681
Percentage	15% (2554/16819)	29% (681/2359)
Percentage	82% (2554/3110)	65% (681/1048)
No. of duplicons satisfying (3)	2645	1510
No. of duplicons satisfying (1) and (3)	2209	886
Percentage	13% (2209/16819)	38% (886/2359)
Percentage	84% (2209/2645)	59% (886/1510)