TABLE 1.

Sites under positive of diversifying selection in protein coding genes.

Protein	Gene	Number of sites in alignment	Number of MEME sites under + selection	Number of FUBAR sites under + and − selection	Positions and number of MEME sites, confirmed by FUBAR
Acetyl-CoA carboxylase carboxyltransferase beta subunit	accD	480	6	+5 −23	96,156, 176, 477 Total 4
Cytochrome c biogenesis protein CcsA	ccsA	330	2	+3 −8	241
Protein TIC 214	ycf1	1,761	51	+9 −44	352, 705, 810, 851 Total 4
Hypothetical chloroplast RF21	ycf2	2,294	15	+35 −14	474, 475, 595, 691, 1,786 Total 5
NADH-plastoquinone_oxidoreductase_subunit_1	ndhA	366	3	+1 −76	206
NADH-plastoquinone_oxidoreductase_subunit_2	ndhB	511	1	+2 −12	380
NADH-plastoquinone_oxidoreductase_subunit_4L	ndhE	102	1	+1 −13	47
NADH-plastoquinone_oxidoreductase_subunit_4	ndhD	507	5	+3 −88	404, 454 Total 2
NADH-plastoquinone oxidoreductase subunit 5	ndhF	734	15	+6 −146	299, 510, 514,676 Total 4
NADH-plastoquinone_oxidoreductase_subunit_6	ndhG	183	1	+1 −18	34
NADH-plastoquinone oxidoreductase subunit K	ndhK	249	3	+2 −20	235, 240 Total 2
Photosystem II protein M	psbM	35	1	+1 −1	33
Ribosomal protein L16	rpl16	137	1	+1 −22	120
Ribosomal protein L20	rpl20	118	2	+3, −3	73
Maturase K	matK	521	13	+7 −40	92,324, 345 Total 3
Ribosomal protein S16	rps16	83	1	+2 −6	83
Ribulose-1,5-bisphosphate carboxylase oxygenase large subunit	rbcL	480	9	+10 −70	91,97, 225, 265 Total 4
RNA polymerase alpha subunit	rpoA	341	2	+10 −23	225
RNA polymerase beta subunit	rpoB	1,071	9	+5 −158	7, 160, 1,061 Total 3