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There are a small number of occasional typographic and editing errors, and a few tables (3.6 and 3.8) and figures (3.3 and 3.4) appear to be duplicated in Chapter 3. In a few areas, a little more could have been made of data and interpretations.
Members within the bilirubin or phenol group are highly similar and appear to be duplicated recently.
Similarly, the six-exon Ugt 2a5 and 2a6 genes appear to be duplicated recently (Fig. 4B).
The presence of what would appear to be duplicated genes for poly(A) polymerases in plants, and particularly the existence of genes lacking introns, raises the possibility that some of the plant genes might be pseudogenes.
In Populus trichocarpa genome, the 12 LIM gene models identified all appear to be duplicated genes.
"Author contributions" and "Acknowledgements" appear to be duplicated in the manuscript.
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In particular, in the pSymA plasmid, one region appeared to be duplicated in all natural strains.
This actually represents 81 individual WRKY transcription factors as one gene appears to be duplicated Additional file 4: Table S2.
Additionally, three Brachypodium orthologs (Bradi4g00980, Bradi4g02450, Bradi4g06000) appeared to be duplicated as suggested by the ordering of contigs sharing homology with these genes.
For example, PsBZPc24 to PsBZPc28 appeared to be duplicated in tandem within scaffold_15, and additional duplicates appear to have been translocated to scaffold_20 (PsBZPc31) and scaffold_8 (PsBZPc10) (assuming the apparent translocations do not result from sequence assembly errors).
The peak allele frequency of the STAP cells, however, was at approximately 33%, meaning that one of the two chromosomes appears to be duplicated leading to three copies of chromosome 8.
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