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The markers varied significantly in mean sequence divergence (Table 1).
The mean sequence divergence for these cases averaged 4.46%, with values ranging from 2.19 6.53%.
Three loci, ITS1, trnH-psbA, and rpoB2, had a mean sequence divergence value greater than two percent while the remaining loci ranged between 0.2% and 1.55% (Tables 1, 2, Figure 2).
One consequence is that strictly using morphology to evaluate the congruence with genetic groups would have been overly subjective, and using a priori morphological species to calibrate a mean sequence divergence threshold (e.g. any barcoding paper) would have been largely meaningless.
For example, rpoB2 had a high mean sequence divergence value (2.05%), but poor PCR success in non-angiosperms (failed in all tested gymnosperms, ferns and all but one moss); rpoC1 had better PCR success (83.3%) than rpoB2, but a lower mutation rate (1.38%).
b Mean sequence divergence of nucleotide sequence (NSD) calculated by the K-2P method.
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Chase et al. (2005) [10] and Kress et al. (2005) [14] recovered highest mean percentage sequence divergence (2.81 and 5.7% respectively) for nrITS region for plant barcoding.
The mean K2P sequence divergence between species (x = 14.02%; SD = 3.47%; range = 2.68 37.61%) was approximately 21-fold higher than within species variation (0.66%; SD = 0.50%; range = 0 3.38%) and formed mostly disjunct distributions (Figure 4).
The mean percent sequence divergence for rbcL-a ranked sixth, but it exceeded all other loci except ITS1 and trnH-psbA in the percent of genera in which species pairs could be differentiated (69.8%).
Mean pairwise sequence divergence within Rattus spp. rat HEV genotype 3 sequences was 0.51%.
Mean pairwise sequence divergence within each cluster was calculated as an estimate of Θπ.
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mean velocity divergence
mean genome divergence
mean sequence similarity
mean sequence identity
mean admixture divergence
mean sequence distance
mean percentage divergence
mean sequence coverage
mean sequence tag
mean sequence length
mean sequence gap
mean sequence quality
mean percent divergence
mean sequence depth
mean pairwise divergence
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