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["Supplementary Data 1 - List of polymorphisms detected via whole genome sequencing"]
["strain","origin","evidence","chr","pos","mutation","annotation","gene","description"]
["S.Tm Alpha clone 1","STm14028","RA","NC_016810",635606,"T→A","E95V(GAG→GTG)","SL1344_RS02910←","PTS system mannose/fructose/N‑acetylgalactosamine‑transporter subunit IIB"]
["S.Tm Alpha clone 1","STm14028","RA","NC_016810",1638110,"A→G","T55A(ACC→GCC)","SL1344_RS07945→","virulence factor SrfB"]
["S.Tm Alpha clone 1","STm14028","RA","NC_016810",1643641,"A→G","intergenic (+59/+46)","yncL→ / ←patD","stress response membrane protein YncL/aminobutyraldehyde dehydrogenase"]
["S.Tm Alpha clone 1","STm14028","RA","NC_016810",1677646,"A→G","A25A(GCT→GCC)","SL1344_RS08120←","membrane protein"]
["S.Tm Alpha clone 1","Novel","RA","NC_016810",1756092,"G→A","D110N(GAT→AAT)","SL1344_RS08515→","DNA‑binding transcriptional regulator YciT"]
["S.Tm Alpha clone 1","STm14028","RA","NC_016810",2411272,"T→C","L148L(TTA→TTG)","menC←","o‑succinylbenzoate synthase"]
["S.Tm Alpha clone 1","STm14028","RA","NC_016810",2934979,"T→C","intergenic (+560/+220)","SL1344_RS14335→ / ←fljA","IS3 family transposase/phase 1 flagellin gene repressor FljA"]
["S.Tm Alpha clone 1","STm14028","RA","NC_016810",2943604,"T→C","T1152T(ACT→ACC)","iroC→","salmochelin/enterobactin export ABC transporter IroC"]
["S.Tm Alpha clone 1","STm14028","RA","NC_016810",2943712,"G→T","E1188D(GAG→GAT)","iroC→","salmochelin/enterobactin export ABC transporter IroC"]
["S.Tm Alpha clone 2","Novel","RA","NC_016810",269042,"T→A","I40N(ATC→AAC)","rnhB→","ribonuclease HII"]
["S.Tm Alpha clone 2","STm14028","RA","NC_016810",635606,"T→A","E95V(GAG→GTG)","SL1344_RS02910←","PTS system mannose/fructose/N‑acetylgalactosamine‑transporter subunit IIB"]
["S.Tm Alpha clone 2","STm14028","RA","NC_016810",1638110,"A→G","T55A(ACC→GCC)","SL1344_RS07945→","virulence factor SrfB"]
["S.Tm Alpha clone 2","STm14028","RA","NC_016810",1643641,"A→G","intergenic (+59/+46)","yncL→ / ←patD","stress response membrane protein YncL/aminobutyraldehyde dehydrogenase"]
["S.Tm Alpha clone 2","STm14028","RA","NC_016810",1677646,"A→G","A25A(GCT→GCC)","SL1344_RS08120←","membrane protein"]
["S.Tm Alpha clone 2","Novel","RA","NC_016810",1756092,"G→A","D110N(GAT→AAT)","SL1344_RS08515→","DNA‑binding transcriptional regulator YciT"]
["S.Tm Alpha clone 2","Novel","RA","NC_016810",2346087,"C→T","A22A(GCG→GCA)","SL1344_RS11545←","cytochrome c‑type biogenesis protein CcmH"]
["S.Tm Alpha clone 2","STm14028","RA","NC_016810",2411272,"T→C","L148L(TTA→TTG)","menC←","o‑succinylbenzoate synthase"]
["S.Tm Beta clone 1","STm14028","RA","NC_016810",635606,"T→A","E95V(GAG→GTG)","SL1344_RS02910←","PTS system mannose/fructose/N‑acetylgalactosamine‑transporter subunit IIB"]
["S.Tm Beta clone 1","STm14028","RA","NC_016810",1070375,"C→T","intergenic (‑234/+127)","SL1344_RS05015← / ←gtgA","hypothetical protein/type III secretion system effector protease GtgA"]
["S.Tm Beta clone 1","Novel","RA","NC_016810",1131869,"Δ1 bp","intergenic (+138/+1)","SL1344_RS05335→ / ←pipA","tRNA‑Ser/type III secretion system effector protease PipA"]
["S.Tm Beta clone 1","Novel","RA","NC_016810",1611523,"T→A","intergenic (+22/‑503)","yddG→ / →ompD","aromatic amino acid efflux DMT transporter YddG/porin OmpD"]
["S.Tm Beta clone 1","Novel","RA","NC_016810",1756092,"G→A","D110N(GAT→AAT)","SL1344_RS08515→","DNA‑binding transcriptional regulator YciT"]
["S.Tm Beta clone 1","STm14028","RA","NC_016810",2230940,"C→T","L76L(CTG→CTA)","steD←","type III secretion system effector SteD"]
["S.Tm Beta clone 1","Novel","RA","NC_016810",2234515,"T→C","F177L(TTT→CTT)","SL1344_RS11010→","nucleoside permease"]
["S.Tm Beta clone 1","STm14028","RA","NC_016810",2247766,"A→C","R104R(CGA→CGC)","metG→","methionine‑‑tRNA ligase"]
["S.Tm Beta clone 1","STm14028","RA","NC_016810",2411272,"T→C","L148L(TTA→TTG)","menC←","o‑succinylbenzoate synthase"]
["S.Tm Beta clone 1","STm14028","RA","NC_016810",2739383,"T→G","E148D(GAA→GAC)","SL1344_RS13285←","C40 family peptidase"]
["S.Tm Beta clone 1","Novel","RA","NC_016810",2751926,"G→A","R389C(CGC→TGC)","SL1344_RS13360←","phage portal protein"]
["S.Tm Beta clone 1","STm14028","RA","NC_016810",2752110,"A→G","H327H(CAT→CAC)","SL1344_RS13360←","phage portal protein"]
["S.Tm Beta clone 1","Novel","RA","NC_016810",2752188,"G→A","P301P(CCC→CCT)","SL1344_RS13360←","phage portal protein"]
["S.Tm Beta clone 1","Novel","RA","NC_016810",2752254,"G→T","I279I(ATC→ATA)","SL1344_RS13360←","phage portal protein"]
["S.Tm Beta clone 1","STm14028","RA","NC_016810",2757178,"C→T","G131S(GGC→AGC)","SL1344_RS13390←","lysozyme"]
["S.Tm Beta clone 1","STm14028","RA","NC_016810",4397792,"G→A","intergenic (+101/‑222)","SL1344_RS21340→ / →SL1344_RS21345","type III secretion system effector arginine glycosyltransferase SseK1/hypothetical protein"]
["S.Tm Beta clone 1","STm14028","RA","NC_016810",4398551,"C→A","P312P(CCG→CCT)","thiH←","2‑iminoacetate synthase ThiH"]
["S.Tm Beta clone 1","STm14028","RA","NC_016810",4402700,"A→T","Y340N(TAC→AAC)","thiC←","phosphomethylpyrimidine synthase ThiC"]
["S.Tm Beta clone 1","STm14028","RA","NC_016810",4407604,"G→A","E114E(GAG→GAA)","SL1344_RS21400→","YjaG family protein"]
["S.Tm Beta clone 1","STm14028","RA","NC_016810",4413619,"T→C","T55A(ACG→GCG)","purD←","phosphoribosylamine‑‑glycine ligase"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",234810,"G→A","M22I(ATG→ATA)","SL1344_RS01005→","fimbrial protein"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",635606,"T→A","E95V(GAG→GTG)","SL1344_RS02910←","PTS system mannose/fructose/N‑acetylgalactosamine‑transporter subunit IIB"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",1054847,"G→T","A414E(GCA→GAA)","SL1344_RS04895←","site‑specific integrase"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",1059115,"A→T","W532R(TGG→AGG)","SL1344_RS04915←","RecE family exodeoxyribonuclease"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",1061219,"A→G","S32S(AGT→AGC)","SL1344_RS04925←","YdaE family protein"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",1064445,"G→A","A217T(GCG→ACG)","SL1344_RS04950→","ATP‑binding protein"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",1070375,"C→T","intergenic (‑234/+127)","SL1344_RS05015← / ←gtgA","hypothetical protein/type III secretion system effector protease GtgA"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",1131869,"Δ1 bp","intergenic (+138/+1)","SL1344_RS05335→ / ←pipA","tRNA‑Ser/type III secretion system effector protease PipA"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",1756092,"G→A","D110N(GAT→AAT)","SL1344_RS08515→","DNA‑binding transcriptional regulator YciT"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2225914,"T→G","S248A(TCC→GCC)","SL1344_RS10970→","DUF4034 domain‑containing protein"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2411272,"T→C","L148L(TTA→TTG)","menC←","o‑succinylbenzoate synthase"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2757178,"C→T","G131S(GGC→AGC)","SL1344_RS13390←","lysozyme"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2761380,"T→G","I8I(ATA→ATC)","SL1344_RS13425←","YlcG family protein"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2761483,"A→G","C177R(TGC→CGC)","SL1344_RS13430←","recombination protein NinG"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2761549,"C→T","A155T(GCC→ACC)","SL1344_RS13430←","recombination protein NinG"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2761622,"G→A","F130F(TTC→TTT)","SL1344_RS13430←","recombination protein NinG"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2761679,"T→C","A111A(GCA→GCG)","SL1344_RS13430←","recombination protein NinG"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2761778,"T→C","K78K(AAA→AAG)","SL1344_RS13430←","recombination protein NinG"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2762013,"T→C","intergenic (‑2/+1)","SL1344_RS13430← / ←SL1344_RS27720","recombination protein NinG/hypothetical protein"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2762123,"T→C","E33G(GAA→GGA)","SL1344_RS27720←","hypothetical protein"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2762157,"C→T","V22I(GTA→ATA)","SL1344_RS27720←","hypothetical protein"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2762182,"A→G","C13C(TGT→TGC)","SL1344_RS27720←","hypothetical protein"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2762188,"G→A","H11H(CAC→CAT)","SL1344_RS27720←","hypothetical protein"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2762229,"2 bp→CC","coding (593‑594/603 nt)","SL1344_RS13440←","DUF1367 family protein"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2762454,"T→G","A123A(GCA→GCC)","SL1344_RS13440←","DUF1367 family protein"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2762463,"A→T","S120S(TCT→TCA)","SL1344_RS13440←","DUF1367 family protein"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2762472,"G→C","L117L(CTC→CTG)","SL1344_RS13440←","DUF1367 family protein"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2762481,"T→C","G114G(GGA→GGG)","SL1344_RS13440←","DUF1367 family protein"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2762628,"G→A","P65P(CCC→CCT)","SL1344_RS13440←","DUF1367 family protein"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2762664,"A→G","F53F(TTT→TTC)","SL1344_RS13440←","DUF1367 family protein"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2762911,"G→A","R65R(CGC→CGT)","SL1344_RS25705←","hypothetical protein"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2763034,"T→C","V24V(GTA→GTG)","SL1344_RS25705←","hypothetical protein"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2763082,"T→C","K8K(AAA→AAG)","SL1344_RS25705←","hypothetical protein"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2763264,"A→G","I64I(ATT→ATC)","SL1344_RS13450←","DinI family protein"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2763471,"C→T","intergenic (‑16/+546)","SL1344_RS13450← / ←SL1344_RS13460","DinI family protein/ASCH domain‑containing protein"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2763475,"C→T","intergenic (‑20/+542)","SL1344_RS13450← / ←SL1344_RS13460","DinI family protein/ASCH domain‑containing protein"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2763519,"G→A","intergenic (‑64/+498)","SL1344_RS13450← / ←SL1344_RS13460","DinI family protein/ASCH domain‑containing protein"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2766146,"T→A","M216L(ATG→TTG)","SL1344_RS13480←","replication protein P"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2766174,"T→C","S206S(TCA→TCG)","SL1344_RS13480←","replication protein P"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2766185,"C→A","A203S(GCC→TCC)","SL1344_RS13480←","replication protein P"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2766197,"G→A","R199C(CGT→TGT)","SL1344_RS13480←","replication protein P"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2766226,"A→G","V189A(GTT→GCT)","SL1344_RS13480←","replication protein P"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2766240,"C→G","E184D(GAG→GAC)","SL1344_RS13480←","replication protein P"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2766249,"A→G","I181I(ATT→ATC)","SL1344_RS13480←","replication protein P"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2766276,"T→C","K172K(AAA→AAG)","SL1344_RS13480←","replication protein P"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2766285,"G→T","L169L(CTC→TTA)","SL1344_RS13480←","replication protein P"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2766287,"G→A","L169L(CTC→TTA)","SL1344_RS13480←","replication protein P"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2766294,"T→C","E166E(GAA→GAG)","SL1344_RS13480←","replication protein P"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2766297,"2 bp→AG","coding (494‑495/693 nt)","SL1344_RS13480←","replication protein P"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2766303,"C→A","R163R(CGG→CGT)","SL1344_RS13480←","replication protein P"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2766353,"G→T","R147R(CGA→AGA)","SL1344_RS13480←","replication protein P"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",2766357,"T→G","P145P(CCA→CCC)","SL1344_RS13480←","replication protein P"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2767678,"2 bp→CA","coding (15‑16/906 nt)","SL1344_RS13485←","replication protein"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2767744,"2 bp→AC","intergenic (‑51/+40)","SL1344_RS13485← / ←SL1344_RS13490","replication protein/CII family transcriptional regulator"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2767747,"3 bp→CCT","intergenic (‑54/+36)","SL1344_RS13485← / ←SL1344_RS13490","replication protein/CII family transcriptional regulator"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2767771,"A→G","intergenic (‑78/+14)","SL1344_RS13485← / ←SL1344_RS13490","replication protein/CII family transcriptional regulator"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2767778,"G→A","intergenic (‑85/+7)","SL1344_RS13485← / ←SL1344_RS13490","replication protein/CII family transcriptional regulator"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2767887,"T→C","E91E(GAA→GAG)","SL1344_RS13490←","CII family transcriptional regulator"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2767908,"C→T","G84G(GGG→GGA)","SL1344_RS13490←","CII family transcriptional regulator"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2767947,"C→T","G71G(GGG→GGA)","SL1344_RS13490←","CII family transcriptional regulator"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2767962,"C→T","R66R(AGG→AGA)","SL1344_RS13490←","CII family transcriptional regulator"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2768004,"T→A","S52S(TCA→TCT)","SL1344_RS13490←","CII family transcriptional regulator"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2768043,"A→G","S39S(AGT→AGC)","SL1344_RS13490←","CII family transcriptional regulator"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2768052,"C→T","E36E(GAG→GAA)","SL1344_RS13490←","CII family transcriptional regulator"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2770674,"G→A","pseudogene (39/156 nt)","SL1344_RS27725→","hypothetical protein"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2770718,"T→C","pseudogene (83/156 nt)","SL1344_RS27725→","hypothetical protein"]
["S.Tm Beta clone 2","Novel","RA","NC_016810",2770722,"T→C","pseudogene (87/156 nt)","SL1344_RS27725→","hypothetical protein"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",4397792,"G→A","intergenic (+101/‑222)","SL1344_RS21340→ / →SL1344_RS21345","type III secretion system effector arginine glycosyltransferase SseK1/hypothetical protein"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",4398551,"C→A","P312P(CCG→CCT)","thiH←","2‑iminoacetate synthase ThiH"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",4402700,"A→T","Y340N(TAC→AAC)","thiC←","phosphomethylpyrimidine synthase ThiC"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",4407604,"G→A","E114E(GAG→GAA)","SL1344_RS21400→","YjaG family protein"]
["S.Tm Beta clone 2","STm14028","RA","NC_016810",4413619,"T→C","T55A(ACG→GCG)","purD←","phosphoribosylamine‑‑glycine ligase"]
["S.Tm Gamma clone 1","STm14028","RA","NC_016810",635606,"T→A","E95V(GAG→GTG)","SL1344_RS02910←","PTS system mannose/fructose/N‑acetylgalactosamine‑transporter subunit IIB"]
["S.Tm Gamma clone 1","Novel","RA","NC_016810",1092165,"C→T","A116V(GCA→GTA)","SL1344_RS27640→","DUF1983 domain‑containing protein"]
["S.Tm Gamma clone 1","STm14028","RA","NC_016810",1100366,"A→G","intergenic (‑330/‑97)","SL1344_RS05185← / →pepN","DinI‑like family protein/aminopeptidase N"]
["S.Tm Gamma clone 1","STm14028","RA","NC_016810",1110819,"A→G","I191V(ATC→GTC)","pqiA→","membrane integrity‑associated transporter subunit PqiA"]
["S.Tm Gamma clone 1","STm14028","RA","NC_016810",1113716,"G→T","intergenic (+9/‑247)","pqiC→ / →rmf","membrane integrity‑associated transporter subunit PqiC/ribosome modulation factor"]
["S.Tm Gamma clone 1","Novel","RA","NC_016810",1756092,"G→A","D110N(GAT→AAT)","SL1344_RS08515→","DNA‑binding transcriptional regulator YciT"]
["S.Tm Gamma clone 1","STm14028","RA","NC_016810",2411272,"T→C","L148L(TTA→TTG)","menC←","o‑succinylbenzoate synthase"]
["S.Tm Gamma clone 1","Novel","RA","NC_016810",2733854,"G→T","T311N(ACT→AAT)","SL1344_RS13265←","prophage tail fiber N‑terminal domain‑containing protein"]
["S.Tm Gamma clone 1","STm14028","RA","NC_016810",2739383,"T→G","E148D(GAA→GAC)","SL1344_RS13285←","C40 family peptidase"]
["S.Tm Gamma clone 1","STm14028","RA","NC_016810",4686205,"G→T","P47H(CCT→CAT)","SL1344_RS26225←","hypothetical protein"]
["S.Tm Gamma clone 1","STm14028","RA","NC_016810",4686380,"+T","intergenic (‑36/‑86)","SL1344_RS26225← / →reiD","hypothetical protein/myo‑inositol utilization transcriptional regulator ReiD"]
["S.Tm Gamma clone 1","STm14028","RA","NC_016810",4693227,"T→C","S570G(AGT→GGT)","iolC←","5‑dehydro‑2‑deoxygluconokinase"]
["S.Tm Gamma clone 1","STm14028","RA","NC_016810",4694618,"A→C","V106G(GTC→GGC)","iolC←","5‑dehydro‑2‑deoxygluconokinase"]
["S.Tm Gamma clone 1","STm14028","RA","NC_016810",4695137,"T→C","intergenic (‑203/‑214)","iolC← / →iolD","5‑dehydro‑2‑deoxygluconokinase/3D‑(3,5/4)‑trihydroxycyclohexane‑1,2‑dione acylhydrolase (decyclizing)"]
["S.Tm Gamma clone 2","STm14028","RA","NC_016810",635606,"T→A","E95V(GAG→GTG)","SL1344_RS02910←","PTS system mannose/fructose/N‑acetylgalactosamine‑transporter subunit IIB"]
["S.Tm Gamma clone 2","Novel","RA","NC_016810",1756092,"G→A","D110N(GAT→AAT)","SL1344_RS08515→","DNA‑binding transcriptional regulator YciT"]
["S.Tm Gamma clone 2","STm14028","RA","NC_016810",2225914,"T→G","S248A(TCC→GCC)","SL1344_RS10970→","DUF4034 domain‑containing protein"]
["S.Tm Gamma clone 2","STm14028","RA","NC_016810",2411272,"T→C","L148L(TTA→TTG)","menC←","o‑succinylbenzoate synthase"]
["S.Tm Gamma clone 2","Novel","JC","NC_016810",2728635,"(GGGCAA)8→10","intergenic (+449/‑24)","gogB→ / →SL1344_RS25680","type III secretion effector GogB/PagK family vesicle‑borne virulence factor"]
["S.Tm Gamma clone 2","Novel","RA","NC_016810",4274092,"C→T","M35I(ATG→ATA)","SL1344_RS20770←","AzlC family ABC transporter permease"]
["S.Tm Gamma clone 2","STm14028","RA","NC_016810",4686205,"G→T","P47H(CCT→CAT)","SL1344_RS26225←","hypothetical protein"]
["S.Tm Gamma clone 2","STm14028","RA","NC_016810",4686380,"+T","intergenic (‑36/‑86)","SL1344_RS26225← / →reiD","hypothetical protein/myo‑inositol utilization transcriptional regulator ReiD"]
["S.Tm Gamma clone 2","STm14028","RA","NC_016810",4693227,"T→C","S570G(AGT→GGT)","iolC←","5‑dehydro‑2‑deoxygluconokinase"]
["S.Tm Gamma clone 2","STm14028","RA","NC_016810",4694618,"A→C","V106G(GTC→GGC)","iolC←","5‑dehydro‑2‑deoxygluconokinase"]
["S.Tm Gamma clone 2","STm14028","RA","NC_016810",4695137,"T→C","intergenic (‑203/‑214)","iolC← / →iolD","5‑dehydro‑2‑deoxygluconokinase/3D‑(3,5/4)‑trihydroxycyclohexane‑1,2‑dione acylhydrolase (decyclizing)"]
["S.Tm Delta clone 1","STm14028","RA","NC_016810",635606,"T→A","E95V(GAG→GTG)","SL1344_RS02910←","PTS system mannose/fructose/N‑acetylgalactosamine‑transporter subunit IIB"]
["S.Tm Delta clone 1","Novel","RA","NC_016810",1746596,"C→A","intergenic (‑53/+414)","SL1344_RS08470← / ←steC","EAL domain‑containing protein/SPI‑2 type III secretion system effector kinase SteC"]
["S.Tm Delta clone 1","STm14028","RA","NC_016810",1748808,"A→G","G79G(GGA→GGG)","SL1344_RS08485→","hypothetical protein"]
["S.Tm Delta clone 1","Novel","RA","NC_016810",1756092,"G→A","D110N(GAT→AAT)","SL1344_RS08515→","DNA‑binding transcriptional regulator YciT"]
["S.Tm Delta clone 1","STm14028","RA","NC_016810",2411272,"T→C","L148L(TTA→TTG)","menC←","o‑succinylbenzoate synthase"]
["S.Tm Delta clone 2","Novel","RA","NC_016810",83119,"T→A","G334G(GGA→GGT)","caiC←","crotonobetaine/carnitine‑CoA ligase"]
["S.Tm Delta clone 2","STm14028","RA","NC_016810",635606,"T→A","E95V(GAG→GTG)","SL1344_RS02910←","PTS system mannose/fructose/N‑acetylgalactosamine‑transporter subunit IIB"]
["S.Tm Delta clone 2","Novel","RA","NC_016810",1746596,"C→A","intergenic (‑53/+414)","SL1344_RS08470← / ←steC","EAL domain‑containing protein/SPI‑2 type III secretion system effector kinase SteC"]
["S.Tm Delta clone 2","STm14028","RA","NC_016810",1748808,"A→G","G79G(GGA→GGG)","SL1344_RS08485→","hypothetical protein"]
["S.Tm Delta clone 2","Novel","RA","NC_016810",1756092,"G→A","D110N(GAT→AAT)","SL1344_RS08515→","DNA‑binding transcriptional regulator YciT"]
["S.Tm Delta clone 2","STm14028","RA","NC_016810",2411272,"T→C","L148L(TTA→TTG)","menC←","o‑succinylbenzoate synthase"]
["S.Tm Delta clone 2","Novel","RA","NC_016810",2770504,"G→T","intergenic (‑120/‑132)","SL1344_RS13510← / →SL1344_RS27725","hypothetical protein/hypothetical protein"]
["S.Tm Epsilon clone 1","STm14028","RA","NC_016810",635606,"T→A","E95V(GAG→GTG)","SL1344_RS02910←","PTS system mannose/fructose/N‑acetylgalactosamine‑transporter subunit IIB"]
["S.Tm Epsilon clone 1","STm14028","RA","NC_016810",876446,"T→G","E388A(GAG→GCG)","clsB←","cardiolipin synthase ClsB"]
["S.Tm Epsilon clone 1","STm14028","RA","NC_016810",1677646,"A→G","A25A(GCT→GCC)","SL1344_RS08120←","membrane protein"]
["S.Tm Epsilon clone 1","Novel","RA","NC_016810",1756092,"G→A","D110N(GAT→AAT)","SL1344_RS08515→","DNA‑binding transcriptional regulator YciT"]
["S.Tm Epsilon clone 1","STm14028","RA","NC_016810",2411272,"T→C","L148L(TTA→TTG)","menC←","o‑succinylbenzoate synthase"]
["S.Tm Epsilon clone 2","STm14028","RA","NC_016810",635606,"T→A","E95V(GAG→GTG)","SL1344_RS02910←","PTS system mannose/fructose/N‑acetylgalactosamine‑transporter subunit IIB"]
["S.Tm Epsilon clone 2","Novel","RA","NC_016810",732867,"A→T","L276Q(CTG→CAG)","SL1344_RS03380←","PhoH family protein"]
["S.Tm Epsilon clone 2","Novel","RA","NC_016810",1473226,"C→T","H109Y(CAT→TAT)","sodC2→","superoxide dismutase [Cu‑Zn] SodC2"]
["S.Tm Epsilon clone 2","STm14028","RA","NC_016810",1677646,"A→G","A25A(GCT→GCC)","SL1344_RS08120←","membrane protein"]
["S.Tm Epsilon clone 2","Novel","RA","NC_016810",1756092,"G→A","D110N(GAT→AAT)","SL1344_RS08515→","DNA‑binding transcriptional regulator YciT"]
["S.Tm Epsilon clone 2","STm14028","RA","NC_016810",2411272,"T→C","L148L(TTA→TTG)","menC←","o‑succinylbenzoate synthase"]
["S.Tm Epsilon clone 2","STm14028","RA","NC_016810",3964111,"C→T","L12L(CTG→TTG)","SL1344_RS19305→","AsmA family protein"]
["S.Tm Epsilon clone 2","STm14028","RA","NC_016810",3973364,"C→T","R106R(CGC→CGT)","SL1344_RS19340→","virulence RhuM family protein"]
["S.Tm Epsilon clone 2","STm14028","RA","NC_016810",3974959,"A→G","intergenic (‑590/‑424)","SL1344_RS26075← / →SL1344_RS19345","transposase/helix‑turn‑helix transcriptional regulator"]
["S.Tm Zeta clone 1","STm14028","RA","NC_016810",635606,"T→A","E95V(GAG→GTG)","SL1344_RS02910←","PTS system mannose/fructose/N‑acetylgalactosamine‑transporter subunit IIB"]
["S.Tm Zeta clone 1","Novel","RA","NC_016810",1756092,"G→A","D110N(GAT→AAT)","SL1344_RS08515→","DNA‑binding transcriptional regulator YciT"]
["S.Tm Zeta clone 1","STm14028","RA","NC_016810",2411272,"T→C","L148L(TTA→TTG)","menC←","o‑succinylbenzoate synthase"]
["S.Tm Zeta clone 1","STm14028","RA","NC_017720",64311,"A→G","L146L(CTA→CTG)","spvB→","SPI‑2 type III secretion system effector NAD(+)‑‑protein‑arginine ADP‑ribosyltransferase SpvB"]
["S.Tm Zeta clone 1","Novel","JC","NC_017720",69582,"(TCATGGCCG)2→1","coding (44‑52/603 nt)","SL1344_RS27810←","LysM peptidoglycan‑binding domain‑containing protein"]
["S.Tm Zeta clone 2","STm14028","RA","NC_016810",635606,"T→A","E95V(GAG→GTG)","SL1344_RS02910←","PTS system mannose/fructose/N‑acetylgalactosamine‑transporter subunit IIB"]
["S.Tm Zeta clone 2","Novel","RA","NC_016810",1756092,"G→A","D110N(GAT→AAT)","SL1344_RS08515→","DNA‑binding transcriptional regulator YciT"]
["S.Tm Zeta clone 2","STm14028","RA","NC_016810",2411272,"T→C","L148L(TTA→TTG)","menC←","o‑succinylbenzoate synthase"]
["S.Tm Zeta clone 2","STm14028","RA","NC_017720",64311,"A→G","L146L(CTA→CTG)","spvB→","SPI‑2 type III secretion system effector NAD(+)‑‑protein‑arginine ADP‑ribosyltransferase SpvB"]
["S.Tm Zeta clone 2","Novel","JC","NC_017720",69582,"(TCATGGCCG)2→1","coding (44‑52/603 nt)","SL1344_RS27810←","LysM peptidoglycan‑binding domain‑containing protein"]