Table 3.
Genetic diversity estimates from loci that were successfully genotyped using High Resolution Melt Analysis (HRMA)
| Locus |
HE/HO |
Major allele1 frequency 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 |
*Denotes significant deviation from HWE following sequential Bonferroni correction.
1 The identity of the major allele is defined as the allele with the highest frequency in the transcriptome data.
+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.