TABLE 1

Notation for analysis of reads

SymbolMeaning
mNo. of diploid individuals in the sample
n2m, i.e., no. of chromosomes
GLength of resequenced region in base pairs
lLength of a read in base pairs
λRate of Poisson process
X = λlExpected coverage per haploid
θMutation parameter
ρRecombination parameter
SNo. of SNPs in the sample
STNo. of SNPs detected by reads
RMSERoot mean square error