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When a candidate gene was within multiple (overlapping) loci, each was counted as a separate prediction for a certain locus.
The frequencies of new introns were calculated by dividing the number of new intron-containing alleles by the total number of D. pulex alleles surveyed for a certain locus following the method in Li et al. (2009).
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Targeted sequencing involves the enrichment of a certain locus or group of loci in a varying number of samples.
Due to the inclusion of potential splicing isoforms in the assembly, the longest transcripts for a certain loci were taken as unigenes.
The phenotype vector y is centered so that it has zero mean and SD of 1. x ∈ { 0, 1 } n denotes the column vector of allelic values measured for all n samples at a certain locus.
IC the information content and is a measure of the probability that the IBD status at a certain locus can be determined for a given pairs of relatives.
Consider a population consisting at a certain locus of three genotypes: A1A1, A1A2, and A2A2.
Broadly the same individuals were sequenced for the two nuclear loci and three cpDNA fragments; minor exceptions were due to repeated failures in sequencing a certain locus from a certain individual (see Table 1).
To reiterate, mutation combines information from multiple loci as it changes a certain locus.
When this dropout occurs at a certain locus (locus i), no dropouts can occur at the other loci.
When two dropouts occur at a certain locus (locus i), no dropout can occur at the other analyzed loci.
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