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The telomeric locations in these species all appear to be unrelated to one another, based on the Ancestral genes closest to them (table 1).
Although Korea and Japan later developed phonetic syllabaries, the visual language of the educated continued to be based on the ancestral Chinese form.
A positive iHs score (iHs ≥ 2) indicates that haplotypes based on the ancestral allele are longer compared to those extending from the derived allele, while negative values of the iHs statistics (iHs ≤−2) indicate that the derived allele is under selection [13].
Finally, the results of the sub-haplogroup assignments were all expected based on the ancestral origin of the sampled populations as shown in Figure 5.
These are analyzed based on the ancestral reconstruction inferred from the coding sequence alignment and corresponding phylogenetic tree using the CODEML algorithm.
70% of the homeologies given in Table 5 also contained regions of common ancestral origin based on the ancestral karyotype (linkage groups labelled A - M) as characterised by Danzmann et al. [ 6].
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Finally, we generated recombinant ancestral LCEs based on the predicted ancestral sequences (Additional file 2: Figure S2) and examined their P2 site preference.
Analyses were based on the admixture ancestral model for a range of K values from 1 to 15.
The specific location of the root is irrelevant for this analysis, as the nodes between the very short branches deep in the tree correspond to highly similar sequences, which only differ at positions which were not used based on the stringent ancestral probability criteria described below.
The primers based on the recovered ancestral plastomic organization were used to amplify potential nupts.
Initial gene orders were set based on the inferred ancestral gene orders estimated.
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Justyna Jupowicz-Kozak
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