Similar results were also reported by Ishii's group, in which they found that the nuclear microsatellites (the averaged PIC is 0.89) had higher PIC values than the chloroplast microsatellites (the averaged PIC is 0.38) among A-genome species of rice (Ishii et al. 2001).
For the 29 microsatellite loci, the average RST between the Eastern and Western populations is 0.15.
First, we calculated the expected number of mismatches in each imperfect microsatellite from the average rate of per-site mismatch (sum of mismatches divided by the sum of loci lengths) in individual genomes.
Table 1 shows the number of analyzed microsatellites, the number of linkage groups, the map length, the average distance between microsatellites and the average number of microsatellites per linkage group.
The average microsatellite density was maximum in the 5' untranslated regions (UTRs) followed by those in introns, promoters, 3'UTRs and minimum in the coding sequences (CDS).
The average microsatellite density was maximum (1144.8/Mb) in the 5'UTRs followed by introns (327.3/Mb), promoters (300.8/Mb) and 3'UTRs (135.9/Mb) compared to 182.4/Mb in the CDS (Table 1).
Table 1 shows the number of microsatellites analysed for each family, the number of LGs they covered in the genetic map, the map length, the average distance between microsatellites and the average number of microsatellites per linkage group.
Average relative difference (ARD) was calculated by taking the average across microsatellites of the division of the value in chimpanzees by the value in humans.
In interspecies comparisons, the ARD of a variable was calculated by taking the average across microsatellites of the division of the value in chimpanzees by the value in humans.
We speculate that the P. pacificus microsatellites, on average, are still in the expansion phase, a process that might have substantially contributed to the increase of the P. pacificus genome size relative to C. elegans.
