Genotype,H58 Genotype,Gene in CT18 reference sequence,Product,Position in CT18 reference sequence,Reference allele (CT18),Alternative allele,Derived allele,Ancestral allele,Colour code,Reference(s)
0.1,No,STY0653,alkyl hydroperoxide reductase c22 protein,655112,C,T,T,C,#808080,Wong et al. 2016
1,No,STY0304,conserved hypothetical protein,316489,T,C,C,T,#ffbb00,Wong et al. 2016
1.1,No,STY4239,conserved hypothetical protein,4105384,C,T,T,C,#ffff00,Wong et al. 2016
1.2,No,STY0031 (bcfF),fimbrial subunit,30192,C,T,T,C,#ffd700,Wong et al. 2016
2,No,STY2867,hypothetical protein,2737027,A,G,A,G,#32cd32,Wong et al. 2016
2.1,No,STY0144,"UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diami nopimelate--D-alan alanyl ligase",146673,G,A,A,G,#adff2f,Wong et al. 2016
2.2,No,STY4468,lysR family regulatory protein,4355243,T,C,C,T,#98fb98,Wong et al. 2016
2.3,No,STY3228,D-erythrose 4-phosphate dehydrogenase,3095443,G,A,A,G,#6b8e23,Wong et al. 2016
2.4,No,STY3584 (tatC),sec-independent protein translocase protein,3437570,A,C,C,A,#2e8b57,Wong et al. 2016
2.5,No,STY1588,pyridine nucleotide transhydrogenase subunit-beta,1535365,C,T,T,C,#006400,Wong et al. 2016
3,No,STY3196,lysyl tRNA synthetase (LysRS),3062270,T,C,T,C,#0000cd,Wong et al. 2016
3.1,No,STY3203,conserved hypothetical protein,3069182,A,G,G,A,#4682b4,Wong et al. 2016
3.2,No,STY2438,endonuclease IV,2269835,A,G,A,G,#00bfff,Wong et al. 2016
3.3,No,STY3527,conserved hypothetical protein,3368641,C,T,T,C,#1e90ff,Wong et al. 2016
3.4,No,STY3316,hydrogenase-2 component protein,3164162,C,A,A,C,#6a5acd,Wong et al. 2016
3.5,No,STY4063,deoxyuridine 5'-triphosphate nucleotidohydrolase,3923165,G,A,A,G,#4b0082,Wong et al. 2016
4,No,STY1689,conserved hypothetical protein,1615350,C,T,T,C,#cb181d,Wong et al. 2016
4.1,No,STY2507,ribonucleoside-diphosphate reductase 1 beta chain,2342045,G,A,A,G,#8b0000,Wong et al. 2016
4.2,No,STY2781,SseB protein,2640029,G,A,A,G,#ff6347,Wong et al. 2016
0.0.1,No,STY0776,succinate dehydrogenase hydrophobic membrane anchor protein,773487,G,A,A,G,#000000,Wong et al. 2016
0.0.2,No,STY1910,putative ATP/GTP-binding protein,1804415,T,C,C,T,#000000,Wong et al. 2016
0.0.3,No,STY1951,putative ATP-dependent helicase,1840727,G,A,A,G,#000000,Wong et al. 2016
0.1.1,No,STY3775,primosomal protein replication factor,3640678,G,A,A,G,#808080,Wong et al. 2016
0.1.2,No,STY0255,acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha,270120,C,T,T,C,#808080,Wong et al. 2016
0.1.3,No,STY0104,CorD protein,102135,G,A,A,G,#808080,Wong et al. 2016
1.1.1,No,STY0548,putative ABC transporter ATP-binding protein,555826,C,A,A,C,#ffff00,Wong et al. 2016
1.1.2,No,STY2526,Ais protein,2360997,C,T,T,C,#ffff00,Wong et al. 2016
1.1.3,No,STY4803,ornithine carbamoyltransferase,4664137,C,T,T,C,#ffff00,Wong et al. 2016
1.1.4,No,STY2335,uridine kinase,2166082,G,A,A,G,#ffff00,Wong et al. 2016
1.2.1,No,STY4419,putative lipoprotein,4288272,C,T,T,C,#ffd700,Wong et al. 2016
2.0.1,No,STY1260,putative ROK-family protein,1215983,T,G,G,T,#32cd32,Wong et al. 2016
2.0.2,No,STY4268,gluconate utilization operon repressor,4132985,G,A,A,G,#32cd32,Wong et al. 2016
2.1.1,No,STY2682,putative oxidoreductase,2517324,G,A,A,G,#adff2f,Wong et al. 2016
2.1.2,No,STY4059,conserved hypothetical protein,3920009,C,T,T,C,#adff2f,Wong et al. 2016
2.1.3,No,STY3432 (garD),D-galactarate dehydratase,3276735,G,A,A,G,#adff2f,Wong et al. 2016
2.1.4,No,STY1220,flagellar P-ring protein precursor,1173984,C,T,T,C,#adff2f,Wong et al. 2016
2.1.5,No,STY2819,putative oxidoreductase,2683312,G,A,A,G,#adff2f,Wong et al. 2016
2.1.6,No,STY4154,putative DNA-binding protein,4013386,G,A,A,G,#adff2f,Wong et al. 2016
2.1.7,No,STY4227 (nikR),nickel responsive regulator,4094437,G,A,A,G,#adff2f,Wong et al. 2016
2.1.7.1,No,STY4417,glucose-6-phosphate isomerase,4286788,C,T,T,C,#adff2f,Dyson et al. 2021
2.1.7.2,No,STY4106,putative lipoprotein,3967063,C,T,T,C,#adff2f,Dyson et al. 2021
2.1.8,No,STY0829,biotin synthesis protein BioC,827036,G,A,A,G,#adff2f,Wong et al. 2016
2.1.9,No,STY3622,uroporphyrinogen III synthase,3476114,C,T,T,C,#adff2f,Wong et al. 2016
2.2.1,No,STY2853,putative sigma(54) modulation protein,2723847,G,A,A,G,#98fb98,Wong et al. 2016
2.2.2,No,STY4497,alpha-galactosidase,4388609,T,C,C,T,#98fb98,Wong et al. 2016
2.2.3,No,STY0707,glutamate/aspartate transport ATP-binding protein GltL,703762,G,A,A,G,#98fb98,Wong et al. 2016
2.2.4,No,STY0419,pyrroline-5-carboxylate reductase,431216,G,A,A,G,#98fb98,Wong et al. 2016
2.3.1,No,STY0303,probable lipoprotein,316186,C,T,T,C,#6b8e23,Wong et al. 2016
2.3.2,No,STY2080,putative cation transporter,1934711,C,T,T,C,#6b8e23,Wong et al. 2016
2.3.3,No,STY2937,glycine betaine-binding periplasmic protein precursor,2811222,C,T,T,C,#6b8e23,Wong et al. 2016
2.3.4,No,STY3226,"fructose 1,6-bisphosphate aldolase",3092900,C,T,T,C,#6b8e23,Wong et al. 2016
2.3.5,No,STY2853,putative sigma(54) modulation protein,2723724,A,G,G,A,#6b8e23,Wong et al. 2016
2.4.1,No,STY1876,hypothetical protein,1780319,G,A,A,G,#2e8b57,Wong et al. 2016
2.5.1,No,STY1897,2-dehydro-3-deoxyphosphooctonate aldolase,1792810,C,T,T,C,#006400,Wong et al. 2016
2.5.2,No,STY3318,hydrogenase-2 large subunit,3164873,G,A,A,G,#006400,Dyson et al. 2021
3.0.1,No,STY1906,ribose-phosphate pyrophosphokinase,1799842,T,C,C,T,#0000cd,Wong et al. 2016
3.0.2,No,STY0421,shikimate kinase II,432732,C,T,T,C,#0000cd,Wong et al. 2016
3.1.1,No,STY2863,30S ribosomal subunit protein S16,2732615,G,A,A,G,#4682b4,Wong et al. 2016
3.1.2,No,STY3909,ATP synthase subunit B,3770391,C,T,T,C,#4682b4,Wong et al. 2016
3.2.1,No,STY4333 (prkB),phosphoribulokinase,4215341,T,C,T,C,#00bfff,Wong et al. 2016
3.2.2,No,STY4741 (sgaA),probable sugar phosphotransferase,4602946,C,T,T,C,#00bfff,Wong et al. 2016
3.3.1,No,STY2413,cytidine deaminase,2245432,G,A,A,G,#1e90ff,Wong et al. 2016
3.3.2,No,STY3641,"guanosine-5'-triphosphate,3'-diphosphate pyrophosphatase (guanosine pentaphosphatase)",3498544,A,G,G,A,#1e90ff,Rahman et al. 2020
3.3.2.Bd1,No,STY2588,conserved hypothetical protein,2424394,G,A,A,G,#1e90ff,Rahman et al. 2020
3.3.2.Bd2,No,STY2441,1-phosphofructokinase,2272144,G,A,A,G,#1e90ff,Rahman et al. 2020
3.5.1,No,STY1918,hydrogenase-1 operon protein HyaF,1811809,C,T,T,C,#4b0082,Wong et al. 2016
3.5.2,No,STY3874,glutamine synthetase,3729635,G,T,T,G,#4b0082,Wong et al. 2016
3.5.3,No,STY3949,hypothetical protein,3817752,C,T,T,C,#4b0082,Wong et al. 2016
3.5.4,No,STY0176,dihydrolipoamide acetyltransferase component (E2) of pyruvate dehydrogenase,183033,C,T,T,C,#4b0082,Wong et al. 2016
4.1.1,No,STY4134,alpha-amylase,3996717,C,T,T,C,#8b0000,Wong et al. 2016
4.2.1,No,STY0994,killing factor KicB,989024,C,T,T,C,#ff6347,Wong et al. 2016
4.2.2,No,STY3940,chromosomal replication initiator protein,3806278,G,A,A,G,#ff6347,Wong et al. 2016
4.2.3,No,STY1683,putative oxidoreductase,1611156,G,A,A,G,#ff6347,Wong et al. 2016
4.3.1,Yes,STY2513,anaerobic glycerol-3-phosphate dehydrogenase subunit A,2348902,C,T,T,C,#ff0000,Wong et al. 2016
4.3.1.1,Yes,STY1238,putative secreted protein,1193220,T,C,C,T,#f1b6da,Britto et al. 2018; Holt et al. 2010
4.3.1.1.EA1,Yes,STY0750,PTR2-family transport protein,751854,G,A,A,G,#f1b6da,Kariuki et al. 2021
4.3.1.1.P1,Yes,STY0962,anaerobic dimethyl sulfoxide reductase chain A precursor,955875,G,A,A,G,#000000,Klemm et al. 2018; Dyson et al. 2021
4.3.1.2,Yes,STY3836,putative lipoprotein,3694947,C,G,G,C,#c51b7d,Britto et al. 2018; Holt et al. 2010
4.3.1.2.EA2,Yes,STY4818,putative inner membrane protein,4680610,C,T,T,C,#c51b7d,Kariuki et al. 2021
4.3.1.2.EA3,Yes,STY2750,hypothetical protein,2587488,G,A,A,G,#c51b7d,Kariuki et al. 2021
4.3.1.3,Yes,STY0554,putative membrane protein,561056,C,A,A,C,#FB8072,Tanmoy et al. 2018; Rahman et al. 2020
4.3.1.3.Bdq,Yes,STY2826,GTP-binding protein,2688285,C,T,T,C,#FB8072,Tanmoy et al. 2018; Dyson et al. 2021