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Table 3 Genetic diversity estimates from loci that were successfully genotyped using High Resolution Melt Analysis (HRMA)

From: Transcriptome-wide comparison of sequence variation in divergent ecotypes of kokanee salmon

Locus

HE/HO

Major allele1frequency from HRMA (frequency predicted from transcriptome data)

 Stream

 Shore

 Sockeye

Stream

Shore

Sockeye

One74958

0.13 / 0.00 *

0.32 / 0.00 *

0.19 / 0.05 *

0.93 (1.00)

0.80 (0.48)

0.90

One81166

0.29 / 0.29

0.32 / 0.40

0.41 / 0.48

0.18 (1.00)

0.20 (0.46)

0.28

One81284+

0.47 / 0.57

0.43 / 0.61

0.47 / 0.57

0.74 (1.00)

0.70 (0.54)

0.63

One81385

0.20 / 0.22

0.38 / 0.36

0.19 / 0.22

0.79 (0.52)

0.75 (1.00)

0.90

One113434

0.32 / 0.40

0.32 / 0.40

0.00 / 0.00

0.80 (1.00)

0.80 (0.77)

1.00

One73115

0.43 / 0.52

0.44 / 0.47

0.16 / 0.17

0.78 (0.42)

0.67 (0.79)

0.91

One74836

0.49 / 0.37

0.50 / 0.53

0.43 / 0.46

0.58 (0.33)

0.58 (0.65)

0.32

One24190

0.22 / 0.25

0.35 / 0.45

0.44 / 0.48

0.88 (0.31)

0.77 (0.85)

0.67

One73476

0.50 / 0.61

0.50 / 0.25 *

0.50 / 0.57

0.57 (0.35)

0.56 (0.70)

0.52

  1. *Denotes significant deviation from HWE following sequential Bonferroni correction.
  2. 1 The identity of the major allele is defined as the allele with the highest frequency in the transcriptome data.
  3. +The contig from which this locus was created had some overlap with one other contig (34452). Both contigs were subsequently removed from the high coverage data set. As the overlap did not impact the SNP site, this locus has been retained.