Table 2 Evolutionarily accelerated genes identified in the branch site model and related information for L. plantarum JDFM LP11

Gene location	JDFM LP11_1_02423(contig1: 2505522-2510519)	JDFM LP11_1_01046(contig1: 1090820-1092292)	JDFM LP11_1_00340(contig1: 335618-336424)
Gene function	Tail protein	PTS system	Major facilitator superfamily
Gene product	Putative endopeptidase p60	Lichenan permease IIC component	Protein TsgA
Gene information source	COG3953	COG1455	COG0477
No. of orthologus gene in total 9 strains	5	9	6
Peptide length	1,503	490	267
Null model (H0) l nL / alternative model (H1) l nL	–11,731.322 / –11,704.036	–2,535.331 / –2,517.558	–1,480.15 / –1,466.139
P-value (Chi-Ssquare Test)	1.500E-13	2.491E-09	1.199E-07
FDR p-value	3.672E-10	3.049E-06	9.785E-05
ω2 foreground	363.66574	999	999
ω2 background	0.05526	0.00749	0.03914
Proportion of 2a	0.01138	0.00649	0.00784
No. of amino acid sequence change(No. of significant sequence change)	27(7)	3(2)	2(1)

PTS, phosphotransferase system; FDR, false discovery rate.