Table 4.
Genes Tested with Hyphy for Positive Selection (Busted Test) with Their Corresponding P Values.
| Gene | P Value | Gene | P Value |
|---|---|---|---|
| tp0110 | 1.00 | tp0618 | 1.00 |
| tp0133 | 0.00 | tp0620 | 0.00 |
| *tp0136 | 0.00 | *tp0639 | 0.97 |
| tp0164 | 0.98 | tp0640 | 1.00 |
| tp0179 | 1.00 | tp0687 | 0.79 |
| tp0304 | 0.71 | tp0691 | 1.00 |
| tp0313 | 0.00 | tp0705 | 0.24 |
| *tp0326 | 0.00 | tp0729 | 0.09 |
| tp0346 | 0.57 | tp0733 | 0.06 |
| tp0369 | 0.95 | tp0746 | 0.27 |
| tp0433 | 0.00 | tp0856 | 0.01 |
| *tp0462 | 0.00 | tp0858 | 0.02 |
| tp0464 | 1.00 | tp0859 | 0.03 |
| tp0483 | 0.00 | tp0861 | 1.00 |
| tp0484 | 0.98 | tp0865 | 0.00 |
| *tp0488 | 0.00 | tp0896 | 0.45 |
| *tp0515 | 0.01 | tp0898 | 1.00 |
| *tp0548 | 0.00 | tp0966 | 0.16 |
| tp0558 | 1.00 | tp0967 | 0.00 |
| tp0564 | 0.97 | tp0968 | 0.00 |
| tp0577 | 1.00 | *tp0969 | 0.82 |
| tp0617 | 0.50 | tp1031 | 0.00 |
Note.—Genes with a significant P value are underlined and those with dN/dS>2 are marked with an asterisk.
Red, recombinant genes with positive selection (table 1); green, nonrecombinant genes with ω > 1 evaluated by codeml + SNPeff (supplementary table 9, Supplementary Material online); light blue, nonrecombinant genes with excess of SNPs (supplementary table 10, Supplementary Material online).