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As illustrated Fig. 9, we identified most polymorphic positions in the coding sequence (18 out of a total of 29 which are reported) among which 9 SNPs induce amino acid change.
In the PR, the most polymorphic positions were 14, 40, 65, 68 and 70.
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Bivalve conopressin differs from gastropod conopressin at the most polymorphic position in the peptide: position 8.
The synapomorphic position 34 discriminated between haplotypes Soc18 and Slo and haplotypes Bal and BoDr, which differed by two polymorphic positions at most, i.e. by a genetic distance of up to 0.32% (See additional file 2: Variable nucleotide positions for ATP6 gene haplotypes).
Researchers can choose the most polymorphic candidate SSRs according to position and personal preference.
Genotyping of 861 SNP positions in the three wild rats resulted in 438 polymorphic positions, whereas the most polymorphic combination of inbred strains in this experiment (BN, BH, and SHR) yielded 427 SNPs.
For the class II DRB locus (the most polymorphic class II gene) primers at positions 61 79 and 707 727 generated a 667 bp amplicon that is universally conserved, except for auxiliary DRB3 alleles, which contain a single nucleotide mismatch in the 5' primer (C74G).
These positions are located within the most polymorphic region; more specific rather than degenerated primers are needed at these sites.
Newbler assembly notation codes putative SNPs with flanking insertion characters (presumably to reflect uncertainty in indel errors), whereas most reference-guided assemblies provide a direct alignment at polymorphic positions that are easily recognized by SNP-finding packages.
We identified seven polymorphic positions; varying arrangements of which accounted for 10 distinct Pfmsp1 19 haplotypes.
The most polymorphic autosomal locus was D12S391, which presented 38 different sequence-based alleles.
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