This PDF file includes:

• Section S1. Exploration of potential confounding effects on the observed patterns in coral recovery rate
• Section S2. Projected recovery of reefs in different regions of the GBR as a function of different disturbance regimes
• Section S3. Comparing IGR estimates
• Section S4. Identification of recovery periods
• Section S5. Spatial autocorrelation of reef IGR
• Table S1. Summary of the six permutation-based linear mixed models performed to check the effect of within-site versus between-site variability on the observed reduction in IGR.
• Table S2. Summary of the six permutation-based linear mixed models performed to check the effect of the inclusion of the new reefs reef types with two levels (original and new) on the observed reduction in IGR.
• Table S3. Summary of the six permutation based linear models performed to check for the effect of the different starting points for each recovery trajectory trajectory type with two levels (starting with first visit or starting after reduction in coral cover) on the observed reduction in IGR.
• Fig. S1. Small but significant differences in coral cover (less than 3%) plotted against time.
• Fig. S2. Projected recovery after the studied period under different disturbance scenarios for three GBR reefs (Linnet Reef in the northern, Kelso Reef in the central, and Penrith Reef in the southern part of the GBR).
• Fig. S3. For this study, we calculated the IGR of recovery periods (n = 1392) using recovery trajectory end points (first and last).
• Fig. S4. Example time-series for each of the six taxa groups explored here.
• Fig. S5. Semivariogram of reef tabular Acropora IGR.

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