IiDIR14 and IiDIR15 were an example of closely related proteins sharing amino acid identity greater than 98% that may represent within-species alleles.> -wrap-foot> Results from pairwise amino acid sequence comparisons, using complete open reading frames, show as percent identity among members of the DIR-a, DIR-b/d and DIR-e subfamilies.
A clear affinity to either the P or either G sub-genome could not be achieved for 10 SNP loci, which may represent polymorphisms within the second G sub-genome not represented within the contig.
The ancestry results lend support to a model of K = 6, as the divisions between, e.g. Finland and the rest of the population are more clear than lower K's, and K = 7 is less clear as Canadian Indian ancestry appears in two separate populations (complete Table S3), (although this may represent subdivisions within the Canadian Indian group).
Our segmentation pattern is correlated with physical interaction domains [ 46] and with insulator binding, suggesting that coexpression segments may represent substructure within the interaction domains, and that they may be in part determined by insulator binding.
We note that recent studies have also begun to revise species limits in other groups such as Trapelus[ 145], and taxa such as T. pallidus may represent populations within other species.
It may represent polymorphisms within a race that are due to one heterozygous genotype (where the allele frequencies are close to 50%), a mixture of homozygous genotypes or a mixture of these two situations, with the last possibility being more likely based on the frequencies that were observed.
Previous studies suggested that high-identity duplications (identity > 94%) frequently collapsed within working draft sequence assemblies [ 23] and may represent artificial duplications within an assembly [ 18].
As larger, high-identity duplications (≥ 94%) are frequently collapsed within working draft sequence assemblies [ 28] or may represent artificial duplications within an assembly [ 34], we compared these WGAC results to whole genome shotgun sequence detection (WSSD) results.
As larger, high-identity duplications (the 267.0 Mb unshaded region in Fig. 1) are frequently collapsed within working draft sequence assemblies [ 28] or may represent artificial duplications within an assembly [ 34], we compared these WGAC results to those detected by the assembly-independent WSSD approach.
