I have been using punnett squares to visualize mating experiments. I am looking at a pairing which is known to have a crossover event occur. I know from empirically collected data the recombination frequency is ~3%. Can punnett squares be used to express the results bearing the recombination frequency in mind or should I consider a different visualisation technique?
The end result of what I want to achieve is the expected genotypic/phenotypic outcomes taking recombination into account.
In addition the pairing has a sex-linked mutation which further complicates things e.g. aB/Ab x Ab/Y
Here is an example punnett square:
a-B/A-b x A-b/Y
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| x | A-b | Y |
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| a-B | A-b/a-B | a-B/Y |
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| A-b | A-b/A-b | A-b/Y |
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If a want to represent a recombination event in the punnett square (e.g. to produce a-b/A-b and a-b/Y does this mean I would need to add a-b as an additional trait to the punnett square like so?
a-B/A-b/a-b x A-b/Y
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| x | A-b | Y |
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| a-B | A-b/a-B | a-B/Y |
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| A-b | A-b/A-b | A-b/Y |
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| a-b | A-b/a-b | a-b/Y |
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If that is the case, that would give me a frequency of 16.666666% for each.