Table 2. Single SNP association (GLM) statistics for M. javanica ‘pt1103P’ resistance.
| SNP ID | Chr | Position | Raw p-value | Adj. p-value Bonferroni | Adj. p-value Ben Hoch | R2 |
|---|---|---|---|---|---|---|
| S18_30104122 | 18 | 30104122 | 1.18E-34 | 4.69E-31 | 9.57E-33 | 0.825 |
| S18_30104225 | 18 | 30104225 | 5.32E-40 | 2.11E-36 | 5.56E-38 | 0.868 |
| S18_30226628 | 18 | 30226628 | 2.54E-47 | 1.01E-43 | 3.26E-45 | 0.910 |
| S18_30235933 | 18 | 30235933 | 3.66E-31 | 1.45E-27 | 2.85E-29 | 0.789 |
| S18_30236024 | 18 | 30236024 | 2.54E-47 | 1.01E-43 | 3.26E-45 | 0.910 |
| S18_30381428 | 18 | 30381428 | 2.36E-60 | 9.38E-57 | 4.26E-58 | 0.955 |
| S18_30515641 | 18 | 30515641 | 2.54E-47 | 1.01E-43 | 3.26E-45 | 0.910 |
| S18_30711041 | 18 | 30711041 | 2.36E-60 | 9.38E-57 | 4.26E-58 | 0.955 |
| S18_30722375 | 18 | 30722375 | 2.36E-60 | 9.38E-57 | 4.26E-58 | 0.955 |
| S18_30764625 | 18 | 30764625 | 2.36E-60 | 9.38E-57 | 4.26E-58 | 0.955 |
| S18_31010973 | 18 | 31010973 | 5.80E-35 | 2.30E-31 | 4.80E-33 | 0.828 |
| S18_31059094 | 18 | 31059094 | 2.36E-60 | 9.38E-57 | 4.26E-58 | 0.955 |
| S18_31158466 | 18 | 31158466 | 0.034 | 1 | 0.251 | 0.051 |
| S18_31158467 | 18 | 31158467 | 0.034 | 1 | 0.251 | 0.051 |
| S18_31160355 | 18 | 31160355 | 2.36E-60 | 9.38E-57 | 4.26E-58 | 0.955 |
| S18_31164496 | 18 | 31164496 | 2.36E-60 | 9.38E-57 | 4.26E-58 | 0.955 |
| S18_31196588 | 18 | 31196588 | 2.36E-60 | 9.38E-57 | 4.26E-58 | 0.955 |
| S18_31481177 | 18 | 31481177 | 2.36E-60 | 9.38E-57 | 4.26E-58 | 0.955 |
| S18_31547619 | 18 | 31547619 | 0.608 | 1 | 0.922 | 0.003 |
| S18_31624788 | 18 | 31624788 | 0.450 | 1 | 0.911 | 0.007 |
| S18_31787750 | 18 | 31787750 | 0 | 0 | 0 | 1 |
| S18_31822250 | 18 | 31822250 | 7.49E-48 | 2.98E-44 | 1.24E-45 | 0.913 |
| S18_31886894 | 18 | 31886894 | 0 | 0 | 0 | 1 |
| S18_32027399 | 18 | 32027399 | 1.77E-60 | 7.03E-57 | 4.26E-58 | 0.955 |
| S18_32680428 | 18 | 32680428 | 0 | 0 | 0 | 1 |
| S18_33070954 | 18 | 33070954 | 0 | 0 | 0 | 1 |
| S18_33070972 | 18 | 33070972 | 0 | 0 | 0 | 1 |
| S18_33070983 | 18 | 33070983 | 0 | 0 | 0 | 1 |
| S18_33070986 | 18 | 33070986 | 0 | 0 | 0 | 1 |
| S18_33162605 | 18 | 33162605 | 2.36E-60 | 9.38E-57 | 4.26E-58 | 0.955 |
| S18_33162606 | 18 | 33162606 | 5.32E-40 | 2.11E-36 | 5.56E-38 | 0.868 |
| S18_33276771 | 18 | 33276771 | 2.36E-60 | 9.38E-57 | 4.26E-58 | 0.955 |
| S18_33388900 | 18 | 33388900 | 5.80E-35 | 2.30E-31 | 4.80E-33 | 0.828 |
| S18_33757536 | 18 | 33757536 | 0.977 | 1 | 0.978 | 0.000 |
| S18_33876484 | 18 | 33876484 | 2.54E-47 | 1.01E-43 | 3.26E-45 | 0.910 |
| S18_33876485 | 18 | 33876485 | 2.54E-47 | 1.01E-43 | 3.26E-45 | 0.910 |
| S18_33954011 | 18 | 33954011 | 2.36E-60 | 9.38E-57 | 4.26E-58 | 0.955 |
| S18_33959722 | 18 | 33959722 | 5.32E-40 | 2.11E-36 | 5.56E-38 | 0.868 |
| S18_34060245 | 18 | 34060245 | 5.80E-35 | 2.30E-31 | 4.80E-33 | 0.828 |
| S18_34140592 | 18 | 34140592 | 1.31E-47 | 5.21E-44 | 2.08E-45 | 0.912 |
Raw p-values obtained from GLM were adjusted (Adj.) using Bonferroni and Benjamini-Hockberg (Ben Hoch). Note: this table only contains single SNP association results for a subset of SNPs on chromosome 18 (Chr 18) from the C2-50 (3974 SNP set). Position refers to the location of the SNP in the PN40024 reference genome. Results for single SNP association with the entire C2-50 (3974 SNPs) and Riesling (2973 SNPs) SNP sets is shown in S1 and S2 Tables, respectively.