TABLE 1.

Notation for analysis of reads

Symbol	Meaning
m	No. of diploid individuals in the sample
n	2m, i.e., no. of chromosomes
G	Length of resequenced region in base pairs
l	Length of a read in base pairs
λ	Rate of Poisson process
X = λl	Expected coverage per haploid
θ	Mutation parameter
ρ	Recombination parameter
S	No. of SNPs in the sample
ST	No. of SNPs detected by reads
RMSE	Root mean square error