APPENDIX B

Transition probabilities when the selected mutation is adjacent to the neutral loci

Configuration at end of selection phaseProbability given starting configurationConfiguration at start of neutral phase
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Embedded ImageEmbedded Image00O
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Embedded ImageEmbedded ImageEmbedded Image0B
Embedded ImageEmbedded Image00A
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Embedded ImageEmbedded ImageEmbedded ImageEmbedded ImageO
Embedded ImageEmbedded ImageEmbedded ImageEmbedded ImageC
Embedded ImageEmbedded ImageEmbedded Image0B
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Embedded Image0Embedded Image0O
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Embedded Image0Embedded ImageEmbedded ImageO
Embedded Image0Embedded Image0A
Embedded Image0Embedded ImageEmbedded ImageB
Embedded Image0Embedded Image0B
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Embedded Image00Embedded ImageO
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  • The transition probabilities during the selection phase for each of the three starting configurations are given. Notation is as in appendix a. Note that px refers to the probability of recombination to the wild-type background for the proximal locus, while py refers to the probability of a recombination event between the proximal and the distal locus that moves the distal locus to the wild-type background.