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Table 2 Levels of polymorphism in GOT paralogs in T. californicus

From: Gene conversion yields novel gene combinations in paralogs of GOT1 in the copepod Tigriopus californicus

Pop. Paralog # Hap. πsyn Ssyn πnonsyn Snonsyn πsyn+nc Ssyn+nc Taj. D Indels in coding region
SD GOT1p1 6 0.06674 3 0 0 NA NA 1.09  
  GOT1p2 10 0.04501 34 0.00675* 15 0.04359 34 0.21 70 bp insert (one haplotype)
  GOT1Sr 4 0 0 0 0 0.00076 5 0.372  
  GOT1Sd 10 0 0 0.00538* 5 0.00466 12 1.144 1bp fixed
  GOT1_6a 10 0.00742 4 0.00119 2 0.0057 4 1.06 1bp poly.
LJS GOT1p1 6 0.02401 13 0.00195 4 NA NA 0.74  
  GOT1p2 10 0.02296 29 0.00495 15 0.02223 29 −1.48  
  GOT1Sr 4 0.00186 1 0.00136 5 0.0008 5 −0.446  
  GOT1Sd 8 0.0163 6 0.00494* 5 0.00977 23 0.23 1bp poly.
  GOT1_6a 10 0.00211 1 0.00044 1 0.00092 0 0.12  
AB GOT1p1 6 0.00111 1 0.0004 1 NA NA −1.13  
  GOT1p2 6 0.00412 3 0.00087 1 0.00399 3 0.56  
  GOT1Sr 4 0.00479 2 0.0023* 3 0.00102 4 1.06 (stop codon poly.)
  GOT1Sd 4 0 0 0.00287 2 0.00045 1 −0.754  
  GOT1_6a 10 0.00214 1 0.00043 1 0.00304 4 1.5  
SCN GOT1p1 6 0.01356 8 0 0 NA NA 0.27  
  GOT1p2 10 0.01774 14 0.00155 4 0.01747 14 −0.05  
  GOT1Sr 2 0 0 0 0 0.00122 6 NA  
  GOT1Sd 9 0.036 8 0.0123* 9 0.00632 9 0.672 4bp poly., 1bp poly., 4bp fixed
  GOT1_6a 8 0.016 11 0.0023 5 0.0165 14 −0.21  
  1. # Hap. indicates the number of haplotypes sequenced for each gene. S indicates the number of segregating sites for each type of polymorphism (syn-synonymous, non-syn-nonsynonymous, syn+nc-noncoding and synonymous). π gives the average pairwise sequence divergence for each of the same three catergories of sites. Taj. D is the value of Tajima’s D. Poly. indicates that site is polymorphic.
  2. *Note calculations of non-synonymous polymorphism correct reading frame caused by indels in coding region for comparison to other sequences.