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Data S1. Materials and methods.

Fig. S1. TESS analysis: DIC values are plotted against K values (maximum number of clusters).

Fig. S2. TESS plot for K = 5.

Table S1. Primer source information including sequence, species and appropriate reference for the 11 microsatellite loci and the Exon-Primed-Intron-Crossing (EPIC) region used in this study.

Table S2. Superb fairy-wren loci information.

Table S3. Details of potential offspring identified based on CERVUS analysis and removed from data analyses.

Table S4. Significant parent-offspring pairs (unshaded) and triads (shaded) identified using CERVUS parentage analysis.

Table S5. Pairwise FST, RST and ρ RST comparisons for geographical clusters identified in TESS analysis.

Table S6. BayesAss estimates of non-equilibrium migration rates (mean and 95% confidence interval of proportion of migrated individuals, CI) among four geographic regions (defined according to TESS results); proportions of non-migrants (resident individuals) are on the diagonal.

Table S7. Sample code (ID), age (A = adult, I = immature, U = unknown), sex (M = male, F = female), sample site (Site), proportion of woody-vegetation cover within a 500 m radius of the site centroid (PropVeg500 m), the value associated with the probability of an individual's sampling site being its place of birth [−log(L_home)] and the associated P value for 16 potential identified first-generation migrants identified using GENECLASS.

Table S8. Pairwise distance matrices for: Dest upper diagonal and FST lower diagonal.

Table S9. Single-class (T2) test criteria (lower diagonal) and associated P values (upper diagonal) for comparisons among spatial correlograms for female superb fairy-wrens in low-cover fragmented (< 20% tree-cover), high-cover fragmented (25–45% tree-cover) and reference (continuous tree-cover, > 70%) landscapes for each distance class.

Table S10. Single-class (T2) test criteria (lower diagonal) and associated P values (upper diagonal) for comparisons among spatial correlograms for male superb fairy-wrens in low-cover fragmented (< 20% tree-cover), high-cover fragmented (25–45% tree-cover) and reference (continuous tree-cover, > 70%) landscapes for each distance class.

Table S11. Number of pairwise comparisons (No. per distance class) for each distance class (km) in spatial autocorrelation analyses for males and females in low-cover fragmented (< 20%), high-cover fragmented (25–45%) and reference (continuous-cover, > 70%).

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