Table 4. Genes harboring SNPs and InDels.
| Genes harboring SNPs, and InDels | |||
|---|---|---|---|
| SNPs | Insertions | Deletions | |
| GON1 | atpB, atpF, ndhA, rps3, rps4, ycf1 | - | - |
| GON2 | atpB, atpF, ndhA, rps3, rps4, ycf1 | - | - |
| AJH | atpA, atpB, atpE, atpF, ccsA, cemA, clpP, matK, ndhA, ndhC, ndhD, ndhF, ndhG, psaA, psbB, psbC, rbcL, rpl14, rpl22, rpoB, rpoC1, rps11, rps16, rps3, trnQ-UUG, trnR-UCU, ycf1, ycf3 | - | clpP |
| PHU | atpB, atpF, ndhA, rps3, rps4, ycf1 | - | - |
| STN | atpB, atpF, ndhA, rps3, rps4, ycf1 | - | - |
| BUK1 | atpB, atpF, ndhA, rps3, rps4, ycf1 | - | - |
| BUK2 | accD, atpA, atpB, atpF, atpH, atpI, ccsA, clpP, matK, ndhA, ndhC, ndhD, ndhF, ndhG, ndhH, ndhJ, petA, petB, petD, psaA, psaB, psaC, psbA, psbC, psbH, psbI, psbT, psbZ, rbcL, rpl14, rpl16, rpl20, rpl22, rpoA, rpoB, rpoC1, rpoC2, rps11, rps15, rps16, rps19, rps2, rps3, rps4, rps8, trnR-UCU, ycf1, ycf2, ycf3 | atpF, clpP, ndhF, rps19-fragment | matK, ycf3, ycf1 |
| ADG1 | atpH, ccsA, clpP, ndhA, ndhC, rpoB, rpoC1, rpoC2, rps4, trnL-UAG, ycf1 | ndhA, ycf1 | ClpP |
| ADG2 | ccsA, cemA, ndhA, ndhF, rpoB, rps15, ycf1, ycf2 | - | clpP |
| JUZ | atpB, atpF, ccsA, cemA, clpP, ndhA, ndhC, ndhD, ndhF, ndhG, ndhH, petA, psaA, psbB, psbC, rbcL, rpl14, rpl22, rpoB, rpoC1, rps11, rps16, rps3, trnR-UCU, ycf1, ycf3 | - | clpP |
| CUR | atpB, atpF, ndhA, rps3, rps4, ycf1 | - | - |
| CHA | ccsA, cemA, ndhA, ndhF, rpoB, rps15, ycf1, ycf2 | - | clpP |
| TBR | atpA, atpB, ccsA, clpP, matK, ndhA, ndhC, ndhD, ndhF, ndhG, ndhH, psaA, psbA, psbC, psbI, rbcL, rpl14, rpl20, rpl22, rpoB, rpoC1, rpoC2, rps11, rps15, rps3, rps8, rrn23, trnR-UCU, ycf1, ycf1-fragment, ycf2, ycf3 | clpP | clpP |
The SNPs and InDels were annotated. The BUK2, TBR, AJH, and JUZ plastomes have higher number of genes with SNPs compared with the other plastomes. The GON1, GON2, PHU, ST, BUK, and CUR plastomes lack InDels. Comparatively, the SNPs are more common than the InDels in all plastomes.