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100. 80. 60. 40. 20. 0. 100. y = x. 80. 60. 40. 20. 0. 0. 20. 40. 60. 80. 100. y = x. 100. y = x. CYB 1. GHR 1. 80. 60. 40. 20. 0. 0. 20. 40. 60. 80. 100. 0. 100. 200. 300. 400. 100. y = x. 80. CYB 2. GHR 2. 60. Observed differences. 40. 20. 0. 0.

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  1. 100 80 60 40 20 0 100 y = x 80 60 40 20 0 0 20 40 60 80 100 y = x 100 y = x CYB 1 GHR 1 80 60 40 20 0 0 20 40 60 80 100 0 100 200 300 400 100 y = x 80 CYB 2 GHR 2 60 Observed differences 40 20 0 0 20 40 60 80 100 1000 y = x 100 y = x 800 CYB 3 80 GHR 3 600 60 400 40 20 200 0 0 0 20 40 60 80 100 0 2000 4000 6000 ML inferred number of substitutions

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