Figure 2.
Probability of detection for repeats of given copy number at a shotgun coverage of 2×, 4×, and 6×. The threshold depths are 7, 11, and 14, respectively. The solid lines are theoretical predictions, which assume Poisson statistics, and symbols of the same color refer to actual performance on the human data sets. Ideally, the probability is 0 at copy number 1, and 1 at copy numbers larger than 1. We cannot detect every low-copy repeat, but the number of Alu andLine1 transposons in this target region is 4749 and 1797, respectively, so we should be able to detect virtually every transposon.
