Dataset for "Stronger population differentiation at infection-sensing than infection-clearing innate immune loci in songbirds: different selective regimes for different defences". Authors Boyd RJ, DenommŽ MR, Grieves LA and EA MacDougall-Shackleton. Evolution, in press. Dataset includes these files: a. Summary csv fileÊwith sample ID, population, and whether or not sequence was obtained from each of six loci. Each row represents an individual song sparrow (n=96) and columns correspond to the six loci sequenced. This file is namedÊBoyd2Post_PopulationsAndLocusCoverage. b. 5 DNA sequence filesÊ(one for each variable locus) presented in FASTA format. For each file, the first sequence is a reference sequence from GenBank, and the rest are song sparrow sequences used in this study.ÊFile names are as follows, Boyd2Post_AvBD2sequences.txtÊ(61 sequences),Ê Boyd2Post_AvBD7sequences.txtÊ(75 sequences),Ê Boyd2Post_TLR1LBsequences.txtÊ(73 sequences),Ê Boyd2Post_TLR3sequences.txtÊ(72 sequences),Ê Boyd2Post_TLR4sequences.txtÊ(71 sequences). c. CSV datafile of single-nucleotide polymorphisms (SNPs) detected. The file is namedÊBoyd2Post_SNPs_Fst.ÊEach row represents a SNP. Columns are as follows, Locus: the locus where the SNP occurs AA site: amino acid position, relative to the start of the sequence Mutation type: synonymous or nonsynonymous Fst: observed population structuring across the 3 populations, as calculated in Genepop d. Phased haplotype datafile (csv).ÊThe file is namedÊBoyd2Post_PhasedHaplotypes. Each row represents an individual song sparrow (n=85). Haplotypes were phased as described in the paper. Missing data are indicated with N/A. Columns are as follows, Sample ID Population TLR1LB haplotype TLR3 haplotype TLR4 haplotype AvBD2 haplotype AvBD7 haplotype In all datafiles, referencesÊto populations QUBS, RARE and AFAR correspond respectively to eastern, central and western locations described in the paper.