Table 3.

Correlation coefficients (r) of allele frequency differences for SNPs between early‐ and late‐eclosing quantiles of flies in the eclosion time GWAS (Ragland et al., 2017) vs. host race allele frequency differences between apple and hawthorn flies where populations co‐occur at field sites in Grant, MI, Fennville, MI, Dowagiac, MI, and Urbana, IL

	chr 1	chr 2	chr 3	chr 4	chr 5	chr 1–5
Grant, MI
Map SNPs	−0.64 **	−0.16	−0.46 **	0.08	0.02	−0.42 ***
High LD	−0.08	−0.52 ****	−0.09	−0.14	0.07	−0.63 ***
Int. LD	−0.51 ***	−0.08	−0.40 **	0.20	0.04	−0.29 ***
Low LD	−0.25 *	0.05	−0.04	−0.03	0.03	−0.06
Fennville, MI
Map SNPs	−0.75 ****	−0.80 ****	−0.14	0.18	−0.16	−0.56 ****
High LD	−0.43 ****	−0.92 ****	−0.19	−0.20	0.02	−0.66 ****
Int. LD	−0.66 ****	−0.75 ****	−0.07	0.15	−0.17	−0.50 ****
Low LD	−0.28 **	−0.47 ***	−0.14	0.12	0.01	−0.12 *
Dowagiac, MI
Map SNPs	0.45 *	−0.29 **	−0.48 **	0.07	−0.02	−0.01
High LD	0.10	−0.33 **	−0.15	0.28	−0.12	0.01
Int. LD	0.42 **	−0.33 **	−0.36 **	0.09	−0.01	−0.04
Low LD	0.23 *	−0.18	−0.23 *	0.01	−0.01	−0.03
Urbana, IL
Map SNPs	0.71 ****	−0.06	−0.52 **	−0.09	0.11	0.18 *
High LD	0.30 **	−0.11	−0.02	0.06	−0.05	0.20
Int. LD	0.62 ****	0.03	−0.47 **	−0.11	0.13	0.13 *
Low LD	0.25 *	0.03	−0.10	0.04	0.07	0.03

Results are given for all mapped SNPs (Map SNPs), and for high, intermediate (Int.), and low LD classes of SNPs for each chromosome considered separately, as well as for all chromosomes together (chr 1–5). Significant relationships positive in sign are highlighted in bold, and negative relationships are in italics. See Tables 1 and 2 for # of SNPs genotyped in each class.

^* p ≤ 0.01;

^** p ≤ 0.01;

^*** p ≤ 0.001;

^**** p ≤ 0.0001.