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Table 5 Polymorphism Within Regions and Sites for RISP.

From: Investigations of fine-scale phylogeography in Tigriopus californicusreveal historical patterns of population divergence

Outcrop Site Alleles Hap. # Nonsyn1 Syn Silent Indel # πsyn2 πtot-sil πtotal Taj-D3 FW-H4 R5 Rm6
Santa Cruz SCN 8 3 0 2 5 1 0.00346 0.00093 0.00069 -1.60+ -1.54 0 0
  LH 6 2 0 0 0 1 0 0 0 N/A N/A - -
  Total 16 6 0 2 5 2 0.00198 0.00053 0.00040    0 0
  Avg.        0.00173 0.00047 0.00035     
Palos Verdes PVL 8 3 0 2 15 2 0.00574 0.00639 0.00449 1.20 -3.14 0.0028 0
  AB1 8 4 0 0 5 2 0 0.00189 0.00134 0.34 -1.50 0.0004 0
  IP 8 6 0 2 8 3 0.00348 0.00228 0.00162 -0.86 1.71 0.0011 0
  RP1 8 5 0 1 4 1 0.00294 0.00106 0.00075 -1.03 -0.21 - 0
  Total 32 17 0 5 24 4 0.00745 0.00568 0.00404 0.15 -4.19+ 0.0075 1
  Avg.        0.00304 0.00291 0.00205     
La Jolla LJP1 8 8 0 1 17 4 0.00170 0.00431 0.00315 -0.89 -5.36* 0.0743 1
  LJS 8 8 0 1 20 3 0.00167 0.00642 0.00462 0.07 -0.29 0.1166 5
  BR 10 6 0 0 18 5 0 0.00430 0.00315 -0.71 -5.24* 0.0009 5
  Total 26 22 0 2 33 7 0.00367 0.00720 0.00425 -0.68 -2.46 0.0514 9
  Avg.        0.00112 0.00501 0.00364     
Point Loma SD 6 4 0 0 7 0 0 0.00236 0.00173 -0.25 -4.53* - -
  1. 1The number of non-synonymous (nonsyn), synonymous (syn), and the combined non-coding and synonymous (silent).
  2. 2Average number of pairwise differences between sequences within a population for non-synonymous (πnon-syn), synonymous (πsyn), combined synonymous and non-coding (πtot-sil), and all (πtotal) sites.
  3. 3Tajima's D value, none were significant, but an + indicates 0.05 < P < 0.1.
  4. 4Fay and Wu's H value with significance indicated by an * (P < 0.05), and + indicating 0.05 < P < 0.1.
  5. 5Recombination parameter (R) could not be estimated for some sites (-).
  6. 6Minimum number of recombination events (Rm) could not be estimated for some sites (-).