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The PIC value, a measure of allelic diversity at a locus, ranged from 0.12 (Sato568) to 0.80 (Sand115), and the average PIC value was 0.55 (Fig. 3B).
The average PIC value for these six microsatellite markers was found to be 0.70 indicating their very high level of polymorphism.
PIC value represents the relative informativeness of each marker and in the present study, the average PIC value was found to be 0.468.
However, the average PIC produced by our method was lower than that reported by the other studies using SSR, concordant with the earlier study in pearl millet, which reported the average PIC value of 0.49 by SSCP relative to the SSR value of 0.72 tested on the same genotype panel (Bertin et al. [2005]).
The average PIC values at the seven SSR loci in this study and the previous study were 0.59 and 0.78, respectively, suggesting that relatively high levels of polymorphisms were observed among local varieties collected from one country.
Using 19 SSCP InDel markers to determine genetic variation in 101 rice accessions, we found that the 19 markers produced the average number of allele of 6.68, and the average PIC of 0.44.
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The averaged PIC of the nuclear markers was higher than the cytoplasmic, and the average of the mtDNA markers (0.29) was higher than the cpDNA (0.18) (Table 2).
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).
Similarly to our results the highest average PIC occurred in winter triticale for 1R, but the lowest chromosome specific average PIC value, was observed for 3R.
Among all chromosomes, the highest average PIC value (0.33) was detected for chromosome 6H-which corresponds to the observations made by Rostoks et al. [ 24] in a set of European barley cultivars.
In terms of repeat length, Class I SSRs were more polymorphic as compared to the Class II SSRs which may be accounted to the hyper-variable nature of Class I SSRs [ 20] Among different type of repeat unit classes, tetra-nucleotide repeats, in general, showed the higher average PIC value (0.64) followed by di-nucleotide repeats (0.57).
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