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The distribution of the markers in the 30 segregants was used to build a recombination map.
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The remaining 46,823 nonrecombinant SNPs were used to build a recombination-free phylogenetic tree.
We also developed a recombination map and anchored 97.9% of genes and 94.7% of pseudogenes and, impressively, 94.1% of TEs.
In this method, a recombination map composed by a series of intervals each with constant recombination rate is fit on the multiple alignment.
The genotype data were used to estimate a recombination map.
It does not require a recombination map as an input, whereas HAPMIX requires a highly accurate recombination map.
The large number of polymorphic SSR loci made it possible to build a composite map, based on the recombination rate and LOD score for each pair of SSR markers in each homology group.
But let's not just build a static map, either.
At first, Mapmaker Exp/3.0b [ 93] was used to build a framework map for each individual genetic map.
The locus positions from the six component maps were merged to build a 'synthetic' map using basic Microsoft Excel functionalities.
The newly built recombination map was used instead of EXPIM 2012.
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