{"text_format":"3","workbook":"xls","n_sheets":10,"sheets":["NZ_1955_variant_ann","Cell_wall","Conserved_hypo","Phage","Lipid","Metabolism_respiration","Pathways","PPE","Regulatory","Virulence"],"read":"whole","date_system":"1900","formulas":"cached_only"}

{"sheet":"NZ_1955_variant_ann","index":0,"n_rows":1956,"n_cols":10,"rows_kept":1956,"flags":["formulas_cached_only"]}
["Pos","REF","ALT","ANN","Type"," Effect","Gene","Rv_locus","Gene_pos","Amino_change"]
[467,"A","G","ANN=G","missense_variant","MODERATE","dnaA","Rv0001",467,"p.His156Arg"]
[1977,"A","G","ANN=G","upstream_gene_variant","MODIFIER","dnaN","Rv0002",-75]
[2347,"A","G","ANN=G","missense_variant","MODERATE","dnaN","Rv0002",296,"p.Asp99Gly"]
[2532,"T","C","ANN=C","synonymous_variant","LOW","dnaN","Rv0002",481,"p.Leu161Leu"]
[3751,"T","G","ANN=G","missense_variant","MODERATE","recF","Rv0003",472,"p.Leu158Val"]
[4013,"T","C","ANN=C","missense_variant","MODERATE","recF","Rv0003",734,"p.Ile245Thr"]
[5752,"G","A","ANN=A","synonymous_variant","LOW","gyrB","Rv0005",513,"p.Val171Val"]
[6406,"C","T","ANN=T","synonymous_variant","LOW","gyrB","Rv0005",1167,"p.Asn389Asn"]
[6446,"G","T","ANN=T","missense_variant","MODERATE","gyrB","Rv0005",1207,"p.Ala403Ser"]
[7362,"G","C","ANN=C","missense_variant","MODERATE","gyrA","Rv0006",61,"p.Glu21Gln"]
[7585,"G","C","ANN=C","missense_variant","MODERATE","gyrA","Rv0006",284,"p.Ser95Thr"]
[8285,"C","T","ANN=T","synonymous_variant","LOW","gyrA","Rv0006",984,"p.Ile328Ile"]
[9143,"T","C","ANN=C","synonymous_variant","LOW","gyrA","Rv0006",1842,"p.Ile614Ile"]
[9217,"A","C","ANN=C","missense_variant","MODERATE","gyrA","Rv0006",1916,"p.Asp639Ala"]
[9304,"G","A","ANN=A","missense_variant","MODERATE","gyrA","Rv0006",2003,"p.Gly668Asp"]
[10727,"A","G","ANN=G","missense_variant","MODERATE","Rv0007","Rv0007",814,"p.Ile272Val"]
[11879,"A","G","ANN=G","missense_variant","MODERATE","Rv0008c","Rv0008c",433,"p.Ser145Pro"]
[13197,"G","C","ANN=C","missense_variant","MODERATE","Rv0010c","Rv0010c",362,"p.Thr121Ser"]
[13460,"A","G","ANN=G","synonymous_variant","LOW","Rv0010c","Rv0010c",99,"p.Asp33Asp"]
[14401,"A","G","ANN=G","missense_variant","MODERATE","Rv0012","Rv0012",313,"p.Lys105Glu"]
[14785,"T","C","ANN=C","missense_variant","MODERATE","Rv0012","Rv0012",697,"p.Cys233Arg"]
[15117,"C","G","ANN=G","missense_variant","MODERATE","trpG","Rv0013",204,"p.Ile68Met"]
[17857,"T","C","ANN=C","synonymous_variant","LOW","pknA","Rv0015c",906,"p.Thr302Thr"]
[21795,"G","A","ANN=A","missense_variant","MODERATE","pstP","Rv0018c",1387,"p.Pro463Ser"]
[21819,"A","C","ANN=C","missense_variant","MODERATE","pstP","Rv0018c",1363,"p.Ser455Ala"]
[22264,"T","G","ANN=G","synonymous_variant","LOW","pstP","Rv0018c",918,"p.Ala306Ala"]
[23174,"C","A","ANN=A","missense_variant","MODERATE","pstP","Rv0018c",8,"p.Arg3Leu"]
[23714,"C","T","ANN=T","synonymous_variant","LOW","fhaB","Rv0019c",24,"p.Leu8Leu"]
[24294,"C","T","ANN=T","missense_variant","MODERATE","fhaA","Rv0020c",1151,"p.Arg384Gln"]
[24534,"T","C","ANN=C","missense_variant","MODERATE","fhaA","Rv0020c",911,"p.Tyr304Cys"]
[24679,"A","G","ANN=G","missense_variant","MODERATE","fhaA","Rv0020c",766,"p.Tyr256His"]
[24780,"T","C","ANN=C","missense_variant","MODERATE","fhaA","Rv0020c",665,"p.Asp222Gly"]
[25306,"C","G","ANN=G","missense_variant","MODERATE","fhaA","Rv0020c",139,"p.Gly47Arg"]
[26053,"C","G","ANN=G","missense_variant","MODERATE","Rv0021c","Rv0021c",829,"p.Ala277Pro"]
[26959,"C","G","ANN=G","upstream_gene_variant","MODIFIER","pstP","Rv0018c",-3778]
[27469,"A","G","ANN=G","upstream_gene_variant","MODIFIER","pstP","Rv0018c",-4288]
[29462,"C","T","ANN=T","missense_variant","MODERATE","Rv0025","Rv0025",218,"p.Pro73Leu"]
[29999,"A","C","ANN=C","missense_variant","MODERATE","Rv0026","Rv0026",278,"p.Gln93Pro"]
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[31057,"C","G","ANN=G","missense_variant","MODERATE","Rv0026","Rv0026",1336,"p.Gln446Glu"]
[32624,"C","A","ANN=A","missense_variant","MODERATE","Rv0029","Rv0029",568,"p.His190Asn"]
[34044,"T","C","ANN=C","upstream_gene_variant","MODIFIER","bioF2","Rv0032",-251]
[36304,"T","G","ANN=G","synonymous_variant","LOW","bioF2","Rv0032",2010,"p.Ala670Ala"]
[36538,"T","C","ANN=C","synonymous_variant","LOW","bioF2","Rv0032",2244,"p.Ser748Ser"]
[36612,"A","G","ANN=G","synonymous_variant","LOW","acpA","Rv0033",6,"p.Lys2Lys"]
[37031,"C","G","ANN=G","synonymous_variant","LOW","Rv0034","Rv0034",165,"p.Ala55Ala"]
[39758,"A","G","ANN=G","synonymous_variant","LOW","Rv0036c","Rv0036c",72,"p.His24His"]
[42281,"C","A","ANN=A","missense_variant","MODERATE","Rv0039c","Rv0039c",71,"p.Cys24Phe"]
[42967,"G","C","ANN=C","synonymous_variant","LOW","mtc28","Rv0040c",399,"p.Pro133Pro"]
[43945,"A","G","ANN=G","synonymous_variant","LOW","leuS","Rv0041",384,"p.Val128Val"]
[45193,"G","A","ANN=A","synonymous_variant","LOW","leuS","Rv0041",1632,"p.Ala544Ala"]
[50005,"G","A","ANN=A","upstream_gene_variant","MODIFIER","Rv0042c","Rv0042c",-2798]
[50557,"T","C","ANN=C","missense_variant","MODERATE","ino1","Rv0046c",568,"p.Arg190Gly"]
[51949,"A","G","ANN=G","missense_variant","MODERATE","Rv0048c","Rv0048c",749,"p.Val250Ala"]
[52028,"C","T","ANN=T","missense_variant","MODERATE","Rv0048c","Rv0048c",670,"p.Gly224Ser"]
[53679,"C","T","ANN=T","missense_variant","MODERATE","ponA1","Rv0050",17,"p.Pro6Leu"]
[54394,"A","G","ANN=G","synonymous_variant","LOW","ponA1","Rv0050",732,"p.Ala244Ala"]
[62049,"A","G","ANN=G","missense_variant","MODERATE","dnaB","Rv0058",1654,"p.Arg552Gly"]
[62768,"A","G","ANN=G","synonymous_variant","LOW","dnaB","Rv0058",2373,"p.Gly791Gly"]
[63039,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv0059","Rv0059",-161]
[63059,"C","G","ANN=G","upstream_gene_variant","MODIFIER","Rv0059","Rv0059",-141]
[65867,"G","A","ANN=A","missense_variant","MODERATE","celA1","Rv0062",316,"p.Val106Ile"]
[69989,"G","A","ANN=A","missense_variant","MODERATE","Rv0064","Rv0064",1370,"p.Gly457Asp"]
[70267,"G","T","ANN=T","missense_variant","MODERATE","Rv0064","Rv0064",1648,"p.Val550Phe"]
[70816,"A","G","ANN=G","missense_variant","MODERATE","Rv0064","Rv0064",2197,"p.Asn733Asp"]
[71731,"C","T","ANN=T","missense_variant","MODERATE","vapB1","Rv0064A",143,"p.Ala48Val"]
[74092,"C","T","ANN=T","synonymous_variant","LOW","icd2","Rv0066c",420,"p.Leu140Leu"]
[74161,"C","G","ANN=G","missense_variant","MODERATE","icd2","Rv0066c",351,"p.Lys117Asn"]
[75940,"G","C","ANN=C","missense_variant","MODERATE","Rv0068","Rv0068",640,"p.Val214Leu"]
[78103,"T","C","ANN=C","missense_variant","MODERATE","glyA2","Rv0070c",794,"p.Glu265Gly"]
[79361,"G","C","ANN=C","upstream_gene_variant","MODIFIER","icd2","Rv0066c",-4850]
[80133,"C","T","ANN=T","synonymous_variant","LOW","Rv0071","Rv0071",648,"p.Pro216Pro"]
[80616,"C","G","ANN=G","upstream_gene_variant","MODIFIER","sdaA","Rv0069c",-2994]
[86864,"A","G","ANN=G","missense_variant","MODERATE","Rv0078","Rv0078",337,"p.Ile113Val"]
[89200,"G","T","ANN=T","missense_variant","MODERATE","Rv0080","Rv0080",179,"p.Gly60Val"]
[89535,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv0076c","Rv0076c",-3963]
[90929,"C","T","ANN=T","missense_variant","MODERATE","Rv0083","Rv0083",530,"p.Ala177Val"]
[92199,"T","G","ANN=G","synonymous_variant","LOW","Rv0083","Rv0083",1800,"p.Thr600Thr"]
[92322,"A","T","ANN=T","stop_lost&splice_region_variant","HIGH","Rv0083","Rv0083",1923,"p.Ter641Cysext*?"]
[94303,"T","C","ANN=C","missense_variant","MODERATE","hycQ","Rv0086",353,"p.Met118Thr"]
[96101,"G","A","ANN=A","missense_variant","MODERATE","hycE","Rv0087",688,"p.Val230Ile"]
[97696,"T","C","ANN=C","upstream_gene_variant","MODIFIER","Rv0089","Rv0089",-62]
[99301,"C","T","ANN=T","upstream_gene_variant","MODIFIER","mtn","Rv0091",-383]
[100589,"A","G","ANN=G","missense_variant","MODERATE","ctpA","Rv0092",7,"p.Thr3Ala"]
[103600,"A","G","ANN=G","missense_variant","MODERATE","Rv0093c","Rv0093c",64,"p.Cys22Arg"]
[105867,"C","T","ANN=T","missense_variant","MODERATE","PPE1","Rv0096",544,"p.Arg182Trp"]
[106334,"C","A","ANN=A","synonymous_variant","LOW","PPE1","Rv0096",1011,"p.Pro337Pro"]
[116000,"T","G","ANN=G","synonymous_variant","LOW","nrp","Rv0101",6000,"p.Val2000Val"]
[122109,"A","G","ANN=G","missense_variant","MODERATE","ctpB","Rv0103c",65,"p.Leu22Ser"]
[122614,"C","T","ANN=T","missense_variant","MODERATE","Rv0104","Rv0104",298,"p.Arg100Trp"]
[123520,"T","C","ANN=C","missense_variant","MODERATE","Rv0104","Rv0104",1204,"p.Tyr402His"]
[123842,"C","T","ANN=T","upstream_gene_variant","MODIFIER","ctpB","Rv0103c",-1669]
[126563,"C","A","ANN=A","missense_variant","MODERATE","ctpI","Rv0107c",3979,"p.Ala1327Ser"]
[126803,"A","G","ANN=G","missense_variant","MODERATE","ctpI","Rv0107c",3739,"p.Ser1247Pro"]
[130135,"G","A","ANN=A","missense_variant","MODERATE","ctpI","Rv0107c",407,"p.Ala136Val"]
[133839,"C","T","ANN=T","upstream_gene_variant","MODIFIER","ctpI","Rv0107c",-3298]
[137185,"G","A","ANN=A","synonymous_variant","LOW","gca","Rv0112",897,"p.Gln299Gln"]
[138301,"G","A","ANN=A","missense_variant","MODERATE","gmhB","Rv0114",361,"p.Gly121Arg"]
[139756,"T","C","ANN=C","upstream_gene_variant","MODIFIER","oxyS","Rv0117",-1444]
[143207,"T","C","ANN=C","missense_variant","MODERATE","oxcA","Rv0118c",670,"p.Ser224Gly"]
[145966,"G","A","ANN=A","synonymous_variant","LOW","fusA2","Rv0120c",1806,"p.Ala602Ala"]
[146087,"T","C","ANN=C","missense_variant","MODERATE","fusA2","Rv0120c",1685,"p.Asn562Ser"]
[147456,"G","A","ANN=A","missense_variant","MODERATE","fusA2","Rv0120c",316,"p.Arg106Trp"]
[147873,"A","C","ANN=C","upstream_gene_variant","MODIFIER","oxcA","Rv0118c",-3997]
[154283,"T","C","ANN=C","missense_variant","MODERATE","mak","Rv0127",52,"p.Ser18Pro"]
[160953,"G","T","ANN=T","missense_variant","MODERATE","Rv0133","Rv0133",85,"p.Val29Phe"]
[162308,"G","A","ANN=A","missense_variant","MODERATE","ephF","Rv0134",538,"p.Gly180Arg"]
[162339,"A","G","ANN=G","missense_variant","MODERATE","ephF","Rv0134",569,"p.Asp190Gly"]
[170083,"A","G","ANN=G","missense_variant","MODERATE","Rv0143c","Rv0143c",100,"p.Phe34Leu"]
[170907,"A","C","ANN=C","synonymous_variant","LOW","Rv0144","Rv0144",624,"p.Arg208Arg"]
[172901,"C","A","ANN=A","synonymous_variant","LOW","Rv0146","Rv0146",691,"p.Arg231Arg"]
[177857,"G","A","ANN=A","synonymous_variant","LOW","PE1","Rv0151c",1453,"p.Leu485Leu"]
[179234,"C","T","ANN=T","missense_variant","MODERATE","PE1","Rv0151c",76,"p.Gly26Arg"]
[181672,"T","C","ANN=C","missense_variant","MODERATE","ptbB","Rv0153c",314,"p.Asp105Gly"]
[184727,"A","G","ANN=G","missense_variant","MODERATE","pntAb","Rv0156",5,"p.Tyr2Cys"]
[188077,"G","T","ANN=T","missense_variant","MODERATE","PE3","Rv0159c",763,"p.Pro255Thr"]
[188800,"T","C","ANN=C","missense_variant","MODERATE","PE3","Rv0159c",40,"p.Thr14Ala"]
[189809,"C","T","ANN=T","missense_variant","MODERATE","PE4","Rv0160c",631,"p.Ala211Thr"]
[190094,"C","T","ANN=T","missense_variant","MODERATE","PE4","Rv0160c",346,"p.Ala116Thr"]
[194681,"G","C","ANN=C","synonymous_variant","LOW","mce1R","Rv0165c",135,"p.Leu45Leu"]
[195360,"T","C","ANN=C","missense_variant","MODERATE","fadD5","Rv0166",368,"p.Val123Ala"]
[195566,"T","G","ANN=G","missense_variant","MODERATE","fadD5","Rv0166",574,"p.Ser192Ala"]
[196642,"C","T","ANN=T","synonymous_variant","LOW","fadD5","Rv0166",1650,"p.Asn550Asn"]
[198136,"C","A","ANN=A","synonymous_variant","LOW","yrbE1B","Rv0168",477,"p.Ile159Ile"]
[199470,"T","G","ANN=G","missense_variant","MODERATE","mce1A","Rv0169",937,"p.Ser313Ala"]
[199608,"C","T","ANN=T","missense_variant","MODERATE","mce1A","Rv0169",1075,"p.Pro359Ser"]
[200430,"T","C","ANN=C","missense_variant","MODERATE","mce1B","Rv0170",536,"p.Ile179Thr"]
[201567,"G","C","ANN=C","missense_variant","MODERATE","mce1C","Rv0171",636,"p.Glu212Asp"]
[206339,"T","C","ANN=C","missense_variant","MODERATE","mce1F","Rv0174",1109,"p.Leu370Pro"]
[206481,"C","G","ANN=G","synonymous_variant","LOW","mce1F","Rv0174",1251,"p.Pro417Pro"]
[206484,"G","T","ANN=T","synonymous_variant","LOW","mce1F","Rv0174",1254,"p.Gly418Gly"]
[208322,"T","G","ANN=G","missense_variant","MODERATE","Rv0176","Rv0176",871,"p.Ser291Ala"]
[210442,"C","T","ANN=T","missense_variant","MODERATE","lprO","Rv0179c",371,"p.Arg124His"]
[212254,"G","A","ANN=A","upstream_gene_variant","MODIFIER","lprO","Rv0179c",-1442]
[217201,"T","C","ANN=C","synonymous_variant","LOW","bglS","Rv0186",933,"p.Asn311Asn"]
[217863,"C","G","ANN=G","missense_variant","MODERATE","bglS","Rv0186",1595,"p.Pro532Arg"]
[223942,"T","C","ANN=C","missense_variant","MODERATE","Rv0192","Rv0192",379,"p.Ser127Pro"]
[225323,"T","C","ANN=C","missense_variant","MODERATE","Rv0193c","Rv0193c",1249,"p.Lys417Glu"]
[227022,"A","G","ANN=G","missense_variant","MODERATE","Rv0194","Rv0194",145,"p.Ile49Val"]
[227098,"T","C","ANN=C","missense_variant","MODERATE","Rv0194","Rv0194",221,"p.Met74Thr"]
[227545,"C","T","ANN=T","missense_variant","MODERATE","Rv0194","Rv0194",668,"p.Thr223Met"]
[227860,"C","T","ANN=T","missense_variant","MODERATE","Rv0194","Rv0194",983,"p.Pro328Leu"]
[228731,"C","T","ANN=T","synonymous_variant","LOW","Rv0194","Rv0194",1854,"p.Arg618Arg"]
[231114,"C","G","ANN=G","synonymous_variant","LOW","Rv0195","Rv0195",216,"p.Ala72Ala"]
[231589,"T","C","ANN=C","upstream_gene_variant","MODIFIER","Rv0196","Rv0196",-58]
[233358,"A","C","ANN=C","synonymous_variant","LOW","Rv0197","Rv0197",1128,"p.Val376Val"]
[233364,"G","C","ANN=C","missense_variant","MODERATE","Rv0197","Rv0197",1134,"p.Arg378Ser"]
[234477,"T","G","ANN=G","stop_gained","HIGH","Rv0197","Rv0197",2247,"p.Tyr749*"]
[243598,"A","G","ANN=G","missense_variant","MODERATE","Rv0205","Rv0205",215,"p.His72Arg"]
[244393,"T","C","ANN=C","missense_variant","MODERATE","Rv0205","Rv0205",1010,"p.Val337Ala"]
[245921,"G","C","ANN=C","missense_variant","MODERATE","mmpL3","Rv0206c",1398,"p.Asp466Glu"]
[246169,"A","T","ANN=T","missense_variant","MODERATE","mmpL3","Rv0206c",1150,"p.Phe384Ile"]
[249522,"T","C","ANN=C","missense_variant","MODERATE","Rv0209","Rv0209",485,"p.Val162Ala"]
[251575,"G","A","ANN=A","missense_variant","MODERATE","Rv0210","Rv0210",1456,"p.Ala486Thr"]
[251669,"T","C","ANN=C","upstream_gene_variant","MODIFIER","mmpL3","Rv0206c",-4351]
[256182,"G","C","ANN=C","missense_variant","MODERATE","fadD4","Rv0214",119,"p.Gly40Ala"]
[258902,"C","A","ANN=A","upstream_gene_variant","MODIFIER","nadR","Rv0212c",-4262]
[260282,"G","T","ANN=T","missense_variant","MODERATE","lipW","Rv0217c",550,"p.Pro184Thr"]
[261869,"T","C","ANN=C","missense_variant","MODERATE","Rv0218","Rv0218",946,"p.Cys316Arg"]
[262160,"G","A","ANN=A","missense_variant","MODERATE","Rv0218","Rv0218",1237,"p.Asp413Asn"]
[266859,"G","A","ANN=A","synonymous_variant","LOW","Rv0223c","Rv0223c",906,"p.Asp302Asp"]
[267329,"G","A","ANN=A","missense_variant","MODERATE","Rv0223c","Rv0223c",436,"p.Pro146Ser"]
[268277,"G","C","ANN=C","missense_variant","MODERATE","Rv0224c","Rv0224c",351,"p.Phe117Leu"]
[271665,"C","T","ANN=T","missense_variant","MODERATE","Rv0227c","Rv0227c",1175,"p.Ser392Asn"]
[272753,"G","C","ANN=C","missense_variant","MODERATE","Rv0227c","Rv0227c",87,"p.Ser29Arg"]
[273558,"C","G","ANN=G","synonymous_variant","LOW","Rv0228","Rv0228",504,"p.Ser168Ser"]
[275367,"G","T","ANN=T","missense_variant","MODERATE","php","Rv0230c",597,"p.Asp199Glu"]
[277862,"G","T","ANN=T","upstream_gene_variant","MODIFIER","Rv0229c","Rv0229c",-2876]
[278681,"C","G","ANN=G","missense_variant","MODERATE","nrdB","Rv0233",97,"p.His33Asp"]
[283614,"T","C","ANN=C","missense_variant","MODERATE","aftD","Rv0236c",3238,"p.Ser1080Gly"]
[283884,"T","C","ANN=C","missense_variant","MODERATE","aftD","Rv0236c",2968,"p.Thr990Ala"]
[285618,"T","C","ANN=C","missense_variant","MODERATE","aftD","Rv0236c",1234,"p.Met412Val"]
[285772,"A","C","ANN=C","synonymous_variant","LOW","aftD","Rv0236c",1080,"p.Pro360Pro"]
[285871,"A","G","ANN=G","synonymous_variant","LOW","aftD","Rv0236c",981,"p.Val327Val"]
[287570,"G","T","ANN=T","missense_variant","MODERATE","lpqI","Rv0237",385,"p.Val129Leu"]
[288952,"C","T","ANN=T","synonymous_variant","LOW","Rv0238","Rv0238",525,"p.Thr175Thr"]
[289435,"G","T","ANN=T","missense_variant","MODERATE","vapC24","Rv0240",91,"p.Ala31Ser"]
[290454,"C","T","ANN=T","synonymous_variant","LOW","htdX","Rv0241c",201,"p.Leu67Leu"]
[294198,"T","G","ANN=G","missense_variant","MODERATE","fadE5","Rv0244c",1436,"p.Glu479Ala"]
[294453,"T","C","ANN=C","missense_variant","MODERATE","fadE5","Rv0244c",1181,"p.Lys394Arg"]
[295855,"A","C","ANN=C","upstream_gene_variant","MODIFIER","fabG4","Rv0242c",-3826]
[301687,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv0247c","Rv0247c",-2825]
[303039,"C","T","ANN=T","synonymous_variant","LOW","nirB","Rv0252",174,"p.Gly58Gly"]
[304923,"A","G","ANN=G","synonymous_variant","LOW","nirB","Rv0252",2058,"p.Lys686Lys"]
[307103,"C","T","ANN=T","synonymous_variant","LOW","cobQ1","Rv0255c",756,"p.Gly252Gly"]
[309765,"C","T","ANN=T","stop_gained","HIGH","Rv0257","Rv0257",67,"p.Arg23*"]
[310973,"G","A","ANN=A","missense_variant","MODERATE","Rv0259c","Rv0259c",545,"p.Ala182Val"]
[311613,"G","T","ANN=T","synonymous_variant","LOW","Rv0260c","Rv0260c",1047,"p.Val349Val"]
[312851,"G","A","ANN=A","synonymous_variant","LOW","narK3","Rv0261c",1318,"p.Leu440Leu"]
[313869,"G","A","ANN=A","synonymous_variant","LOW","narK3","Rv0261c",300,"p.Ser100Ser"]
[320180,"A","G","ANN=G","synonymous_variant","LOW","oplA","Rv0266c",975,"p.Ile325Ile"]
[322684,"C","T","ANN=T","synonymous_variant","LOW","narU","Rv0267",1354,"p.Leu452Leu"]
[323306,"A","G","ANN=G","upstream_gene_variant","MODIFIER","oplA","Rv0266c",-2152]
[325505,"T","C","ANN=C","synonymous_variant","LOW","fadD2","Rv0270",939,"p.Val313Val"]
[329218,"G","A","ANN=A","missense_variant","MODERATE","Rv0272c","Rv0272c",491,"p.Pro164Leu"]
[331588,"G","A","ANN=A","missense_variant","MODERATE","Rv0275c","Rv0275c",71,"p.Ser24Leu"]
[333212,"G","C","ANN=C","upstream_gene_variant","MODIFIER","fadE6","Rv0271c",-4751]
[333292,"A","G","ANN=G","upstream_gene_variant","MODIFIER","fadE6","Rv0271c",-4831]
[333394,"C","G","ANN=G","upstream_gene_variant","MODIFIER","fadE6","Rv0271c",-4933]
[342146,"A","C","ANN=C","missense_variant","MODERATE","eccA3","Rv0282",17,"p.Glu6Ala"]
[343281,"G","C","ANN=C","synonymous_variant","LOW","eccA3","Rv0282",1152,"p.Ala384Ala"]
[346275,"C","G","ANN=G","missense_variant","MODERATE","eccC3","Rv0284",641,"p.Pro214Arg"]
[350489,"G","C","ANN=C","synonymous_variant","LOW","PPE4","Rv0286",555,"p.Ala185Ala"]
[354280,"G","A","ANN=A","missense_variant","MODERATE","eccD3","Rv0290",1198,"p.Ala400Thr"]
[356528,"A","G","ANN=G","missense_variant","MODERATE","eccE3","Rv0292",649,"p.Asn217Asp"]
[361161,"T","C","ANN=C","upstream_gene_variant","MODIFIER","Rv0293c","Rv0293c",-3097]
[366731,"T","C","ANN=C","missense_variant","MODERATE","PPE5","Rv0304c",6034,"p.Thr2012Ala"]
[367471,"G","A","ANN=A","missense_variant","MODERATE","PPE5","Rv0304c",5294,"p.Ser1765Phe"]
[368168,"C","T","ANN=T","missense_variant","MODERATE","PPE5","Rv0304c",4597,"p.Gly1533Ser"]
[372149,"G","A","ANN=A","synonymous_variant","LOW","PPE5","Rv0304c",616,"p.Leu206Leu"]
[372913,"A","C","ANN=C","synonymous_variant","LOW","PPE6","Rv0305c",2799,"p.Gly933Gly"]
[376774,"T","C","ANN=C","synonymous_variant","LOW","Rv0307c","Rv0307c",282,"p.Ala94Ala"]
[381030,"A","G","ANN=G","missense_variant","MODERATE","Rv0312","Rv0312",475,"p.Ser159Gly"]
[382243,"C","T","ANN=T","missense_variant","MODERATE","Rv0312","Rv0312",1688,"p.Pro563Leu"]
[382489,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv0310c","Rv0310c",-3341]
[382991,"A","G","ANN=G","missense_variant","MODERATE","Rv0314c","Rv0314c",551,"p.Val184Ala"]
[384380,"A","C","ANN=C","missense_variant","MODERATE","Rv0315","Rv0315",779,"p.Lys260Thr"]
[386060,"T","C","ANN=C","upstream_gene_variant","MODIFIER","Rv0314c","Rv0314c",-2519]
[386432,"C","G","ANN=G","missense_variant","MODERATE","Rv0318c","Rv0318c",668,"p.Gly223Ala"]
[389129,"A","G","ANN=G","missense_variant","MODERATE","dcd","Rv0321",548,"p.Tyr183Cys"]
[390828,"T","C","ANN=C","missense_variant","MODERATE","Rv0323c","Rv0323c",424,"p.Ser142Gly"]
[391853,"A","G","ANN=G","missense_variant","MODERATE","Rv0324","Rv0324",502,"p.Thr168Ala"]
[392261,"T","C","ANN=C","stop_lost&splice_region_variant","HIGH","Rv0325","Rv0325",223,"p.Ter75Glnext*?"]
[392506,"A","G","ANN=G","synonymous_variant","LOW","Rv0326","Rv0326",234,"p.Gly78Gly"]
[393748,"G","A","ANN=A","missense_variant","MODERATE","cyp135A1","Rv0327c",298,"p.His100Tyr"]
[394935,"C","G","ANN=G","missense_variant","MODERATE","Rv0329c","Rv0329c",386,"p.Trp129Ser"]
[397386,"C","T","ANN=T","upstream_gene_variant","MODIFIER","cyp135A1","Rv0327c",-3341]
[398034,"A","G","ANN=G","missense_variant","MODERATE","Rv0332","Rv0332",593,"p.Glu198Gly"]
[401678,"C","A","ANN=A","missense_variant","MODERATE","Rv0336","Rv0336",1487,"p.Pro496His"]
[403980,"G","A","ANN=A","missense_variant","MODERATE","Rv0338c","Rv0338c",1862,"p.Ala621Val"]
[404326,"T","C","ANN=C","missense_variant","MODERATE","Rv0338c","Rv0338c",1516,"p.Arg506Gly"]
[405788,"C","A","ANN=A","synonymous_variant","LOW","Rv0338c","Rv0338c",54,"p.Val18Val"]
[405854,"C","G","ANN=G","upstream_gene_variant","MODIFIER","aspC","Rv0337c",-2692]
[411100,"A","G","ANN=G","missense_variant","MODERATE","iniA","Rv0342",263,"p.Asn88Ser"]
[412280,"T","G","ANN=G","missense_variant","MODERATE","iniA","Rv0342",1443,"p.His481Gln"]
[414486,"C","T","ANN=T","synonymous_variant","LOW","lpqJ","Rv0344c",456,"p.Glu152Glu"]
[420008,"A","G","ANN=G","synonymous_variant","LOW","dnaK","Rv0350",174,"p.Ala58Ala"]
[422379,"C","T","ANN=T","missense_variant","MODERATE","grpE","Rv0351",671,"p.Ser224Leu"]
[422745,"T","C","ANN=C","synonymous_variant","LOW","dnaJ1","Rv0352",294,"p.Gly98Gly"]
[424932,"T","A","ANN=A","missense_variant","MODERATE","PPE8","Rv0355c",9748,"p.Ile3250Phe"]
[427471,"T","G","ANN=G","synonymous_variant","LOW","PPE8","Rv0355c",7209,"p.Gly2403Gly"]
[428698,"C","T","ANN=T","synonymous_variant","LOW","PPE8","Rv0355c",5982,"p.Ala1994Ala"]
[438271,"G","A","ANN=A","missense_variant","MODERATE","Rv0359","Rv0359",754,"p.Ala252Thr"]
[442971,"A","C","ANN=C","missense_variant","MODERATE","Rv0364","Rv0364",577,"p.Ile193Leu"]
[443559,"C","A","ANN=A","synonymous_variant","LOW","Rv0365c","Rv0365c",639,"p.Val213Val"]
[445415,"C","T","ANN=T","missense_variant","MODERATE","Rv0368c","Rv0368c",1111,"p.Gly371Ser"]
[445780,"C","T","ANN=T","missense_variant","MODERATE","Rv0368c","Rv0368c",746,"p.Arg249His"]
[447442,"C","T","ANN=T","missense_variant","MODERATE","Rv0370c","Rv0370c",602,"p.Gly201Glu"]
[450115,"C","T","ANN=T","synonymous_variant","LOW","Rv0373c","Rv0373c",1689,"p.Ser563Ser"]
[451439,"A","G","ANN=G","missense_variant","MODERATE","Rv0373c","Rv0373c",365,"p.Phe122Ser"]
[451827,"C","T","ANN=T","synonymous_variant","LOW","Rv0374c","Rv0374c",453,"p.Ala151Ala"]
[454295,"T","C","ANN=C","synonymous_variant","LOW","Rv0376c","Rv0376c",78,"p.Pro26Pro"]
[455329,"T","C","ANN=C","synonymous_variant","LOW","Rv0377","Rv0377",909,"p.Gly303Gly"]
[457452,"T","G","ANN=G","synonymous_variant","LOW","Rv0381c","Rv0381c",372,"p.Thr124Thr"]
[459399,"A","C","ANN=C","upstream_gene_variant","MODIFIER","Rv0380c","Rv0380c",-2580]
[467516,"G","C","ANN=C","synonymous_variant","LOW","PPE9","Rv0388c",486,"p.Ser162Ser"]
[467526,"C","G","ANN=G","missense_variant","MODERATE","PPE9","Rv0388c",476,"p.Gly159Ala"]
[467546,"G","C","ANN=C","missense_variant","MODERATE","PPE9","Rv0388c",456,"p.Asp152Glu"]
[467557,"A","C","ANN=C","missense_variant","MODERATE","PPE9","Rv0388c",445,"p.Leu149Val"]
[467564,"A","C","ANN=C","missense_variant","MODERATE","PPE9","Rv0388c",438,"p.His146Gln"]
[467577,"T","G","ANN=G","missense_variant","MODERATE","PPE9","Rv0388c",425,"p.Glu142Ala"]
[467585,"G","C","ANN=C","missense_variant","MODERATE","PPE9","Rv0388c",417,"p.His139Gln"]
[467590,"T","C","ANN=C","missense_variant","MODERATE","PPE9","Rv0388c",412,"p.Thr138Ala"]
[467621,"T","G","ANN=G","synonymous_variant","LOW","PPE9","Rv0388c",381,"p.Gly127Gly"]
[467638,"G","T","ANN=T","missense_variant","MODERATE","PPE9","Rv0388c",364,"p.Gln122Lys"]
[468357,"A","G","ANN=G","missense_variant","MODERATE","purT","Rv0389",23,"p.Glu8Gly"]
[469329,"T","C","ANN=C","missense_variant","MODERATE","purT","Rv0389",995,"p.Ile332Thr"]
[471918,"A","G","ANN=G","missense_variant","MODERATE","ndhA","Rv0392c",722,"p.Val241Ala"]
[473689,"G","A","ANN=A","synonymous_variant","LOW","Rv0393","Rv0393",909,"p.Ala303Ala"]
[475178,"T","C","ANN=C","missense_variant","MODERATE","Rv0395","Rv0395",239,"p.Val80Ala"]
[475866,"C","G","ANN=G","synonymous_variant","LOW","Rv0397","Rv0397",51,"p.Thr17Thr"]
[481880,"A","G","ANN=G","missense_variant","MODERATE","mmpL1","Rv0402c",1352,"p.Leu451Pro"]
[483935,"T","G","ANN=G","upstream_gene_variant","MODIFIER","fadE7","Rv0400c",-4182]
[484238,"A","G","ANN=G","missense_variant","MODERATE","fadD30","Rv0404",262,"p.Thr88Ala"]
[489000,"C","T","ANN=T","synonymous_variant","LOW","pks6","Rv0405",3270,"p.Thr1090Thr"]
[489935,"G","C","ANN=C","missense_variant","MODERATE","pks6","Rv0405",4205,"p.Arg1402Pro"]
[491742,"T","C","ANN=C","synonymous_variant","LOW","fgd1","Rv0407",960,"p.Phe320Phe"]
[492150,"G","C","ANN=C","missense_variant","MODERATE","pta","Rv0408",365,"p.Gly122Ala"]
[494685,"A","C","ANN=C","synonymous_variant","LOW","ackA","Rv0409",835,"p.Arg279Arg"]
[497108,"C","T","ANN=T","synonymous_variant","LOW","pknG","Rv0410c",207,"p.Pro69Pro"]
[498531,"A","G","ANN=G","synonymous_variant","LOW","Rv0412c","Rv0412c",1089,"p.Ala363Ala"]
[498557,"C","A","ANN=A","missense_variant","MODERATE","Rv0412c","Rv0412c",1063,"p.Asp355Tyr"]
[501620,"C","T","ANN=T","missense_variant","MODERATE","thiO","Rv0415",473,"p.Ala158Val"]
[502589,"C","G","ANN=G","missense_variant","MODERATE","thiG","Rv0417",224,"p.Ser75Cys"]
[503354,"G","C","ANN=C","upstream_gene_variant","MODIFIER","Rv0412c","Rv0412c",-3735]
[505974,"G","A","ANN=A","missense_variant","MODERATE","lpqM","Rv0419",889,"p.Ala297Thr"]
[513257,"T","C","ANN=C","missense_variant","MODERATE","ctpH","Rv0425c",2065,"p.Met689Val"]
[514657,"T","G","ANN=G","missense_variant","MODERATE","ctpH","Rv0425c",665,"p.Glu222Ala"]
[517358,"T","C","ANN=C","missense_variant","MODERATE","Rv0428c","Rv0428c",446,"p.Asp149Gly"]
[517411,"A","G","ANN=G","synonymous_variant","LOW","Rv0428c","Rv0428c",393,"p.Arg131Arg"]
[519185,"T","G","ANN=G","missense_variant","MODERATE","Rv0431","Rv0431",113,"p.Val38Gly"]
[519331,"A","G","ANN=G","missense_variant","MODERATE","Rv0431","Rv0431",259,"p.Thr87Ala"]
[519806,"G","A","ANN=A","synonymous_variant","LOW","sodC","Rv0432",207,"p.Ala69Ala"]
[521319,"T","C","ANN=C","synonymous_variant","LOW","Rv0433","Rv0433",996,"p.Cys332Cys"]
[522081,"A","G","ANN=G","missense_variant","MODERATE","Rv0434","Rv0434",568,"p.Thr190Ala"]
[524891,"C","A","ANN=A","missense_variant","MODERATE","pssA","Rv0436c",500,"p.Gly167Val"]
[527316,"C","G","ANN=G","missense_variant","MODERATE","moeA2","Rv0438c",45,"p.Met15Ile"]
[528354,"C","A","ANN=A","upstream_gene_variant","MODIFIER","Rv0435c","Rv0435c",-3821]
[532192,"C","T","ANN=T","stop_gained","HIGH","PPE10","Rv0442c",23,"p.Trp8*"]
[533239,"C","T","ANN=T","missense_variant","MODERATE","rskA","Rv0444c",551,"p.Gly184Glu"]
[533470,"C","T","ANN=T","missense_variant","MODERATE","rskA","Rv0444c",320,"p.Gly107Asp"]
[534427,"T","A","ANN=A","upstream_gene_variant","MODIFIER","Rv0441c","Rv0441c",-3703]
[539863,"A","G","ANN=G","synonymous_variant","LOW","mmpL4","Rv0450c",1629,"p.Ser543Ser"]
[539883,"A","G","ANN=G","synonymous_variant","LOW","mmpL4","Rv0450c",1609,"p.Leu537Leu"]
[541201,"A","G","ANN=G","synonymous_variant","LOW","mmpL4","Rv0450c",291,"p.Leu97Leu"]
[546357,"A","G","ANN=G","synonymous_variant","LOW","echA2","Rv0456c",447,"p.Thr149Thr"]
[551525,"A","C","ANN=C","synonymous_variant","LOW","Rv0459","Rv0459",328,"p.Arg110Arg"]
[555330,"C","T","ANN=T","missense_variant","MODERATE","Rv0465c","Rv0465c",977,"p.Arg326Gln"]
[555991,"A","G","ANN=G","missense_variant","MODERATE","Rv0465c","Rv0465c",316,"p.Cys106Arg"]
[556201,"T","C","ANN=C","missense_variant","MODERATE","Rv0465c","Rv0465c",106,"p.Asn36Asp"]
[557299,"G","A","ANN=A","upstream_gene_variant","MODIFIER","Rv0464c","Rv0464c",-2414]
[560857,"C","G","ANN=G","synonymous_variant","LOW","pcaA","Rv0470c",855,"p.Leu285Leu"]
[561298,"C","T","ANN=T","synonymous_variant","LOW","pcaA","Rv0470c",414,"p.Ala138Ala"]
[565155,"C","A","ANN=A","synonymous_variant","LOW","Rv0474","Rv0474",135,"p.Gly45Gly"]
[565404,"G","T","ANN=T","synonymous_variant","LOW","Rv0474","Rv0474",384,"p.Arg128Arg"]
[565655,"A","G","ANN=G","upstream_gene_variant","MODIFIER","pcaA","Rv0470c",-3944]
[573262,"A","G","ANN=G","synonymous_variant","LOW","Rv0484c","Rv0484c",540,"p.Gly180Gly"]
[573277,"G","C","ANN=C","synonymous_variant","LOW","Rv0484c","Rv0484c",525,"p.Thr175Thr"]
[573384,"T","G","ANN=G","missense_variant","MODERATE","Rv0484c","Rv0484c",418,"p.Ile140Leu"]
[581821,"G","A","ANN=A","missense_variant","MODERATE","Rv0492c","Rv0492c",1558,"p.Leu520Phe"]
[582221,"T","C","ANN=C","synonymous_variant","LOW","Rv0492c","Rv0492c",1158,"p.Gly386Gly"]
[583818,"C","T","ANN=T","synonymous_variant","LOW","Rv0493c","Rv0493c",873,"p.Gln291Gln"]
[584171,"T","C","ANN=C","missense_variant","MODERATE","Rv0493c","Rv0493c",520,"p.Ser174Gly"]
[584511,"G","T","ANN=T","synonymous_variant","LOW","Rv0493c","Rv0493c",180,"p.Thr60Thr"]
[590436,"T","C","ANN=C","synonymous_variant","LOW","proC","Rv0500",354,"p.Ala118Ala"]
[590763,"G","C","ANN=C","missense_variant","MODERATE","proC","Rv0500",681,"p.Glu227Asp"]
[597816,"A","G","ANN=G","synonymous_variant","LOW","mmpL2","Rv0507",618,"p.Ala206Ala"]
[598475,"G","A","ANN=A","missense_variant","MODERATE","mmpL2","Rv0507",1277,"p.Arg426His"]
[598723,"G","T","ANN=T","missense_variant","MODERATE","mmpL2","Rv0507",1525,"p.Asp509Tyr"]
[599363,"C","G","ANN=G","missense_variant","MODERATE","mmpL2","Rv0507",2165,"p.Ser722Cys"]
[599868,"A","G","ANN=G","synonymous_variant","LOW","mmpL2","Rv0507",2670,"p.Arg890Arg"]
[605338,"A","G","ANN=G","missense_variant","MODERATE","hemB","Rv0512",737,"p.Glu246Gly"]
[609363,"C","T","ANN=T","synonymous_variant","LOW","Rv0517","Rv0517",618,"p.His206His"]
[610120,"T","G","ANN=G","upstream_gene_variant","MODIFIER","Rv0516c","Rv0516c",-1585]
[611373,"T","C","ANN=C","synonymous_variant","LOW","Rv0519c","Rv0519c",702,"p.Gln234Gln"]
[630018,"A","G","ANN=G","upstream_gene_variant","MODIFIER","fabH","Rv0533c",-4538]
[630687,"G","T","ANN=T","synonymous_variant","LOW","Rv0538","Rv0538",648,"p.Pro216Pro"]
[630722,"G","C","ANN=C","missense_variant","MODERATE","Rv0538","Rv0538",683,"p.Arg228Pro"]
[633729,"T","C","ANN=C","missense_variant","MODERATE","Rv0541c","Rv0541c",676,"p.Ile226Val"]
[637319,"G","A","ANN=A","missense_variant","MODERATE","pitA","Rv0545c",145,"p.Pro49Ser"]
[640129,"C","T","ANN=T","upstream_gene_variant","MODIFIER","menE","Rv0542c",-4625]
[644439,"C","T","ANN=T","synonymous_variant","LOW","Rv0552","Rv0552",1551,"p.Ala517Ala"]
[648002,"T","G","ANN=G","missense_variant","MODERATE","Rv0556","Rv0556",44,"p.Leu15Arg"]
[648856,"T","C","ANN=C","synonymous_variant","LOW","mgtA","Rv0557",321,"p.Gly107Gly"]
[652935,"C","T","ANN=T","synonymous_variant","LOW","grcC1","Rv0562",165,"p.Gly55Gly"]
[655986,"T","G","ANN=G","upstream_gene_variant","MODIFIER","Rv0560c","Rv0560c",-4482]
[657578,"A","G","ANN=G","synonymous_variant","LOW","Rv0566c","Rv0566c",462,"p.Asp154Asp"]
[658923,"C","G","ANN=G","missense_variant","MODERATE","Rv0567","Rv0567",603,"p.Phe201Leu"]
[659341,"T","C","ANN=C","upstream_gene_variant","MODIFIER","gpdA1","Rv0564c",-3392]
[662911,"T","C","ANN=C","synonymous_variant","LOW","nrdZ","Rv0570",1617,"p.Ala539Ala"]
[665293,"A","G","ANN=G","missense_variant","MODERATE","Rv0572c","Rv0572c",91,"p.Phe31Leu"]
[666862,"A","G","ANN=G","synonymous_variant","LOW","pncB2","Rv0573c",381,"p.Phe127Phe"]
[668383,"A","C","ANN=C","missense_variant","MODERATE","Rv0574c","Rv0574c",12,"p.Asn4Lys"]
[669398,"T","C","ANN=C","synonymous_variant","LOW","Rv0575c","Rv0575c",348,"p.Gln116Gln"]
[670545,"G","A","ANN=A","missense_variant","MODERATE","Rv0576","Rv0576",698,"p.Arg233His"]
[675976,"A","G","ANN=G","upstream_gene_variant","MODIFIER","PE_PGRS7","Rv0578c",-60]
[679497,"A","G","ANN=G","missense_variant","MODERATE","Rv0584","Rv0584",269,"p.Asp90Gly"]
[684290,"A","G","ANN=G","upstream_gene_variant","MODIFIER","Rv0585c","Rv0585c",-18]
[685461,"C","G","ANN=G","synonymous_variant","LOW","yrbE2A","Rv0587",333,"p.Ala111Ala"]
[685608,"T","C","ANN=C","synonymous_variant","LOW","yrbE2A","Rv0587",480,"p.Leu160Leu"]
[686972,"T","C","ANN=C","missense_variant","MODERATE","mce2A","Rv0589",152,"p.Phe51Ser"]
[687353,"T","C","ANN=C","missense_variant","MODERATE","mce2A","Rv0589",533,"p.Leu178Pro"]
[689204,"C","T","ANN=T","missense_variant","MODERATE","mce2C","Rv0591",146,"p.Thr49Met"]
[690248,"C","A","ANN=A","missense_variant","MODERATE","mce2C","Rv0591",1190,"p.Thr397Asn"]
[690450,"A","C","ANN=C","synonymous_variant","LOW","mce2C","Rv0591",1392,"p.Ala464Ala"]
[690465,"T","G","ANN=G","synonymous_variant","LOW","mce2C","Rv0591",1407,"p.Leu469Leu"]
[692588,"C","T","ANN=T","stop_gained","HIGH","lprL","Rv0593",565,"p.Gln189*"]
[698968,"G","A","ANN=A","synonymous_variant","LOW","Rv0601c","Rv0601c",27,"p.Gly9Gly"]
[699718,"C","T","ANN=T","missense_variant","MODERATE","tcrA","Rv0602c",82,"p.Val28Ile"]
[700776,"T","C","ANN=C","missense_variant","MODERATE","lpqO","Rv0604",538,"p.Ser180Pro"]
[705602,"T","C","ANN=C","missense_variant","MODERATE","Rv0610c","Rv0610c",308,"p.Asn103Ser"]
[712082,"C","G","ANN=G","missense_variant","MODERATE","galTa","Rv0618",547,"p.Arg183Gly"]
[712129,"G","C","ANN=C","synonymous_variant","LOW","galTa","Rv0618",594,"p.Ala198Ala"]
[712693,"A","G","ANN=G","missense_variant","MODERATE","galTb","Rv0619",520,"p.Thr174Ala"]
[713310,"T","C","ANN=C","missense_variant","MODERATE","galK","Rv0620",595,"p.Cys199Arg"]
[713802,"C","T","ANN=T","missense_variant","MODERATE","galK","Rv0620",1087,"p.Arg363Cys"]
[715266,"A","G","ANN=G","stop_lost&splice_region_variant","HIGH","Rv0621","Rv0621",1065,"p.Ter355Trpext*?"]
[717588,"A","G","ANN=G","synonymous_variant","LOW","Rv0625c","Rv0625c",306,"p.Val102Val"]
[719658,"C","T","ANN=T","synonymous_variant","LOW","Rv0628c","Rv0628c",255,"p.Val85Val"]
[720127,"T","C","ANN=C","missense_variant","MODERATE","recD","Rv0629c",1606,"p.Thr536Ala"]
[721208,"C","T","ANN=T","synonymous_variant","LOW","recD","Rv0629c",525,"p.Gly175Gly"]
[722583,"C","A","ANN=A","missense_variant","MODERATE","recB","Rv0630c",2431,"p.Val811Phe"]
[724794,"C","A","ANN=A","missense_variant","MODERATE","recB","Rv0630c",220,"p.Val74Leu"]
[727321,"C","T","ANN=T","missense_variant","MODERATE","recC","Rv0631c",986,"p.Gly329Glu"]
[729114,"G","A","ANN=A","synonymous_variant","LOW","echA3","Rv0632c",165,"p.Gly55Gly"]
[732552,"A","G","ANN=G","missense_variant","MODERATE","hadB","Rv0636",160,"p.Thr54Ala"]
[735865,"A","G","ANN=G","missense_variant","MODERATE","rplA","Rv0641",349,"p.Thr117Ala"]
[736313,"C","T","ANN=T","synonymous_variant","LOW","mmaA4","Rv0642c",891,"p.Pro297Pro"]
[736919,"G","T","ANN=T","missense_variant","MODERATE","mmaA4","Rv0642c",285,"p.Phe95Leu"]
[738820,"C","A","ANN=A","missense_variant","MODERATE","mmaA2","Rv0644c",341,"p.Arg114Leu"]
[741741,"C","T","ANN=T","missense_variant","MODERATE","Rv0647c","Rv0647c",877,"p.Ala293Thr"]
[743317,"C","T","ANN=T","missense_variant","MODERATE","Rv0648","Rv0648",599,"p.Ser200Leu"]
[745229,"G","A","ANN=A","synonymous_variant","LOW","Rv0648","Rv0648",2511,"p.Pro837Pro"]
[757182,"A","G","ANN=G","missense_variant","MODERATE","atsD","Rv0663",1046,"p.Asp349Gly"]
[763031,"T","C","ANN=C","synonymous_variant","LOW","rpoB","Rv0667",3225,"p.Ala1075Ala"]
[767414,"G","A","ANN=A","upstream_gene_variant","MODIFIER","end","Rv0670",-2378]
[769162,"A","G","ANN=G","missense_variant","MODERATE","Rv0669c","Rv0669c",436,"p.Ser146Pro"]
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[770388,"G","A","ANN=A","synonymous_variant","LOW","end","Rv0670",597,"p.Ala199Ala"]
[772896,"G","A","ANN=A","synonymous_variant","LOW","fadE8","Rv0672",1413,"p.Leu471Leu"]
[775639,"T","C","ANN=C","missense_variant","MODERATE","mmpL5","Rv0676c",2842,"p.Ile948Val"]
[776100,"G","A","ANN=A","missense_variant","MODERATE","mmpL5","Rv0676c",2381,"p.Thr794Ile"]
[781395,"T","C","ANN=C","upstream_gene_variant","MODIFIER","mmpL5","Rv0676c",-2915]
[782997,"G","A","ANN=A","synonymous_variant","LOW","fusA1","Rv0684",513,"p.Ala171Ala"]
[786393,"T","G","ANN=G","missense_variant","MODERATE","Rv0686","Rv0686",245,"p.Ile82Ser"]
[798815,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv0698","Rv0698",-18]
[806454,"G","T","ANN=T","synonymous_variant","LOW","atsA","Rv0711",120,"p.Leu40Leu"]
[815103,"C","T","ANN=T","synonymous_variant","LOW","rpmD","Rv0722",111,"p.Arg37Arg"]
[815236,"T","C","ANN=C","missense_variant","MODERATE","rplO","Rv0723",47,"p.Ile16Thr"]
[815851,"A","G","ANN=G","synonymous_variant","LOW","sppA","Rv0724",189,"p.Arg63Arg"]
[820483,"G","T","ANN=T","missense_variant","MODERATE","fucA","Rv0727c",17,"p.Ala6Asp"]
[820752,"C","T","ANN=T","missense_variant","MODERATE","serA2","Rv0728c",725,"p.Arg242His"]
[821907,"T","C","ANN=C","missense_variant","MODERATE","xylB","Rv0729",401,"p.Leu134Pro"]
[831566,"A","G","ANN=G","missense_variant","MODERATE","Rv0739","Rv0739",712,"p.Met238Val"]
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[835828,"C","T","ANN=T","missense_variant","MODERATE","PE_PGRS9","Rv0746",128,"p.Ala43Val"]
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[843859,"T","C","ANN=C","missense_variant","MODERATE","fadE9","Rv0752c",556,"p.Ile186Val"]
[844209,"A","G","ANN=G","missense_variant","MODERATE","fadE9","Rv0752c",206,"p.Val69Ala"]
[844629,"A","C","ANN=C","missense_variant","MODERATE","mmsA","Rv0753c",1325,"p.Val442Gly"]
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[851104,"C","T","ANN=T","synonymous_variant","LOW","Rv0756c","Rv0756c",363,"p.Ala121Ala"]
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[852606,"G","A","ANN=A","missense_variant","MODERATE","phoR","Rv0758",211,"p.Gly71Ser"]
[852607,"G","T","ANN=T","missense_variant","MODERATE","phoR","Rv0758",212,"p.Gly71Val"]
[852910,"C","T","ANN=T","missense_variant","MODERATE","phoR","Rv0758",515,"p.Pro172Leu"]
[854498,"G","A","ANN=A","synonymous_variant","LOW","Rv0760c","Rv0760c",189,"p.Phe63Phe"]
[857696,"A","G","ANN=G","synonymous_variant","LOW","cyp51","Rv0764c",342,"p.Ala114Ala"]
[862575,"C","T","ANN=T","missense_variant","MODERATE","Rv0769","Rv0769",164,"p.Ala55Val"]
[867697,"A","C","ANN=C","missense_variant","MODERATE","Rv0774c","Rv0774c",655,"p.Ser219Ala"]
[868271,"T","C","ANN=C","synonymous_variant","LOW","Rv0774c","Rv0774c",81,"p.Ala27Ala"]
[871271,"A","C","ANN=C","missense_variant","MODERATE","purB","Rv0777",1264,"p.Thr422Pro"]
[877720,"G","A","ANN=A","synonymous_variant","LOW","emrB","Rv0783c",721,"p.Leu241Leu"]
[877721,"G","A","ANN=A","synonymous_variant","LOW","emrB","Rv0783c",720,"p.Gly240Gly"]
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[891404,"C","T","ANN=T","synonymous_variant","LOW","Rv0797","Rv0797",1017,"p.His339His"]
[893733,"T","G","ANN=G","missense_variant","MODERATE","pepC","Rv0800",416,"p.Leu139Arg"]
[894888,"T","C","ANN=C","synonymous_variant","LOW","Rv0801","Rv0801",258,"p.Ser86Ser"]
[900215,"C","G","ANN=G","synonymous_variant","LOW","cpsY","Rv0806c",1116,"p.Arg372Arg"]
[900221,"T","C","ANN=C","synonymous_variant","LOW","cpsY","Rv0806c",1110,"p.Val370Val"]
[903511,"C","G","ANN=G","synonymous_variant","LOW","purF","Rv0808",1401,"p.Val467Val"]
[903550,"T","C","ANN=C","synonymous_variant","LOW","purF","Rv0808",1440,"p.Ala480Ala"]
[903913,"T","C","ANN=C","synonymous_variant","LOW","purM","Rv0809",189,"p.Gly63Gly"]
[906857,"A","G","ANN=G","missense_variant","MODERATE","Rv0812","Rv0812",435,"p.Ile145Met"]
[911261,"T","C","ANN=C","missense_variant","MODERATE","Rv0818","Rv0818",290,"p.Leu97Pro"]
[912830,"C","G","ANN=G","missense_variant","MODERATE","phoT","Rv0820",105,"p.Phe35Leu"]
[913274,"C","G","ANN=G","synonymous_variant","LOW","phoT","Rv0820",549,"p.Ser183Ser"]
[916046,"T","G","ANN=G","missense_variant","MODERATE","Rv0822c","Rv0822c",266,"p.His89Pro"]
[916350,"G","A","ANN=A","upstream_gene_variant","MODIFIER","phoY2","Rv0821c",-2151]
[916659,"A","G","ANN=G","missense_variant","MODERATE","Rv0823c","Rv0823c",988,"p.Phe330Leu"]
[916714,"G","T","ANN=T","synonymous_variant","LOW","Rv0823c","Rv0823c",933,"p.Leu311Leu"]
[917259,"C","A","ANN=A","missense_variant","MODERATE","Rv0823c","Rv0823c",388,"p.Gly130Cys"]
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[919831,"C","T","ANN=T","synonymous_variant","LOW","Rv0826","Rv0826",198,"p.Arg66Arg"]
[920514,"G","A","ANN=A","missense_variant","MODERATE","Rv0826","Rv0826",881,"p.Arg294Gln"]
[924300,"G","A","ANN=A","upstream_gene_variant","MODIFIER","Rv0825c","Rv0825c",-4747]
[931123,"T","C","ANN=C","synonymous_variant","LOW","lpqQ","Rv0835",171,"p.Tyr57Tyr"]
[931437,"A","G","ANN=G","missense_variant","MODERATE","lpqQ","Rv0835",485,"p.Asp162Gly"]
[932252,"C","A","ANN=A","upstream_gene_variant","MODIFIER","PE_PGRS14","Rv0834c",-1767]
[932280,"T","C","ANN=C","stop_lost&splice_region_variant","HIGH","Rv0836c","Rv0836c",653,"p.Ter218Trpext*?"]
[933699,"G","T","ANN=T","synonymous_variant","LOW","Rv0837c","Rv0837c",333,"p.Gly111Gly"]
[934230,"C","G","ANN=G","upstream_gene_variant","MODIFIER","PE_PGRS14","Rv0834c",-3745]
[934233,"G","A","ANN=A","upstream_gene_variant","MODIFIER","PE_PGRS14","Rv0834c",-3748]
[934611,"G","T","ANN=T","upstream_gene_variant","MODIFIER","PE_PGRS14","Rv0834c",-4126]
[937677,"G","T","ANN=T","missense_variant","MODERATE","Rv0841","Rv0841",85,"p.Val29Phe"]
[938246,"A","G","ANN=G","synonymous_variant","LOW","Rv0842","Rv0842",135,"p.Leu45Leu"]
[939959,"A","G","ANN=G","missense_variant","MODERATE","Rv0843","Rv0843",572,"p.Asp191Gly"]
[940890,"C","G","ANN=G","missense_variant","MODERATE","narL","Rv0844c",217,"p.Ala73Pro"]
[941845,"C","A","ANN=A","missense_variant","MODERATE","Rv0845","Rv0845",656,"p.Ala219Glu"]
[945214,"G","A","ANN=A","missense_variant","MODERATE","cysK2","Rv0848",277,"p.Gly93Ser"]
[947294,"T","C","ANN=C","synonymous_variant","LOW","Rv0849","Rv0849",1239,"p.Gly413Gly"]
[948294,"T","C","ANN=C","missense_variant","MODERATE","Rv0851c","Rv0851c",175,"p.Ser59Gly"]
[949535,"T","C","ANN=C","synonymous_variant","LOW","pdc","Rv0853c",1584,"p.Ala528Ala"]
[951142,"C","A","ANN=A","upstream_gene_variant","MODIFIER","Rv0851c","Rv0851c",-2674]
[952762,"G","C","ANN=C","upstream_gene_variant","MODIFIER","Rv0851c","Rv0851c",-4294]
[955524,"A","G","ANN=G","missense_variant","MODERATE","fadA","Rv0859",448,"p.Ser150Gly"]
[957117,"T","C","ANN=C","synonymous_variant","LOW","fadB","Rv0860",825,"p.Asp275Asp"]
[957963,"G","A","ANN=A","synonymous_variant","LOW","fadB","Rv0860",1671,"p.Leu557Leu"]
[958393,"G","A","ANN=A","missense_variant","MODERATE","fadB","Rv0860",2101,"p.Ala701Thr"]
[959379,"A","G","ANN=G","missense_variant","MODERATE","ercc3","Rv0861c",773,"p.Val258Ala"]
[960367,"A","G","ANN=G","missense_variant","MODERATE","Rv0862c","Rv0862c",2246,"p.Leu749Ser"]
[969906,"G","A","ANN=A","synonymous_variant","LOW","PE_PGRS15","Rv0872c",339,"p.Leu113Leu"]
[971902,"G","A","ANN=A","synonymous_variant","LOW","fadE10","Rv0873",1398,"p.Gly466Gly"]
[973671,"G","A","ANN=A","synonymous_variant","LOW","Rv0874c","Rv0874c",36,"p.Asp12Asp"]
[979704,"G","C","ANN=C","missense_variant","MODERATE","Rv0881","Rv0881",343,"p.Gly115Arg"]
[986463,"G","C","ANN=C","upstream_gene_variant","MODIFIER","serC","Rv0884c",-3909]
[990001,"G","C","ANN=C","missense_variant","MODERATE","Rv0890c","Rv0890c",2596,"p.Pro866Ala"]
[993346,"A","C","ANN=C","missense_variant","MODERATE","Rv0891c","Rv0891c",110,"p.Val37Gly"]
[996982,"A","G","ANN=G","synonymous_variant","LOW","Rv0894","Rv0894",459,"p.Ala153Ala"]
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[1011100,"C","T","ANN=T","missense_variant","MODERATE","Rv0907","Rv0907",965,"p.Pro322Leu"]
[1014815,"T","G","ANN=G","missense_variant","MODERATE","Rv0909","Rv0909",135,"p.His45Gln"]
[1018028,"G","A","ANN=A","missense_variant","MODERATE","Rv0913c","Rv0913c",698,"p.Pro233Leu"]
[1024346,"A","G","ANN=G","missense_variant","MODERATE","Rv0918","Rv0918",136,"p.Ser46Gly"]
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[1026070,"G","T","ANN=T","missense_variant","MODERATE","Rv0920c","Rv0920c",747,"p.Asp249Glu"]
[1027445,"G","C","ANN=C","synonymous_variant","LOW","Rv0921","Rv0921",342,"p.Val114Val"]
[1029936,"A","G","ANN=G","synonymous_variant","LOW","Rv0923c","Rv0923c",642,"p.Arg214Arg"]
[1034238,"A","G","ANN=G","synonymous_variant","LOW","Rv0927c","Rv0927c",394,"p.Leu132Leu"]
[1037012,"T","C","ANN=C","missense_variant","MODERATE","pstA1","Rv0930",14,"p.Met5Thr"]
[1037911,"C","T","ANN=T","stop_gained","HIGH","pstA1","Rv0930",913,"p.Arg305*"]
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[1043169,"T","C","ANN=C","missense_variant","MODERATE","pstS1","Rv0934",1055,"p.Val352Ala"]
[1047165,"T","C","ANN=C","missense_variant","MODERATE","ligD","Rv0938",1030,"p.Cys344Arg"]
[1047827,"C","T","ANN=T","synonymous_variant","LOW","ligD","Rv0938",1692,"p.Leu564Leu"]
[1054136,"C","T","ANN=T","synonymous_variant","LOW","Rv0944","Rv0944",372,"p.Thr124Thr"]
[1054784,"C","G","ANN=G","missense_variant","MODERATE","Rv0945","Rv0945",538,"p.Arg180Gly"]
[1062745,"T","C","ANN=C","missense_variant","MODERATE","sucC","Rv0951",782,"p.Val261Ala"]
[1063765,"G","A","ANN=A","missense_variant","MODERATE","sucD","Rv0952",626,"p.Arg209Lys"]
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[1068432,"A","G","ANN=G","synonymous_variant","LOW","purH","Rv0957",228,"p.Pro76Pro"]
[1070702,"T","C","ANN=C","missense_variant","MODERATE","Rv0958","Rv0958",820,"p.Ser274Pro"]
[1074558,"G","A","ANN=A","missense_variant","MODERATE","lprP","Rv0962c",557,"p.Pro186Leu"]
[1075279,"T","C","ANN=C","upstream_gene_variant","MODIFIER","lprP","Rv0962c",-165]
[1076309,"G","T","ANN=T","missense_variant","MODERATE","Rv0964c","Rv0964c",370,"p.Pro124Thr"]
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[1077280,"A","C","ANN=C","missense_variant","MODERATE","Rv0966c","Rv0966c",556,"p.Trp186Gly"]
[1077312,"A","G","ANN=G","missense_variant","MODERATE","Rv0966c","Rv0966c",524,"p.Val175Ala"]
[1079927,"C","A","ANN=A","synonymous_variant","LOW","ctpV","Rv0969",1185,"p.Thr395Thr"]
[1080192,"G","A","ANN=A","missense_variant","MODERATE","ctpV","Rv0969",1450,"p.Asp484Asn"]
[1081681,"T","C","ANN=C","synonymous_variant","LOW","Rv0970","Rv0970",630,"p.Val210Val"]
[1083043,"C","A","ANN=A","missense_variant","MODERATE","fadE12","Rv0972c",708,"p.Gln236His"]
[1085093,"T","A","ANN=A","missense_variant","MODERATE","accA2","Rv0973c",658,"p.Ile220Phe"]
[1087193,"G","C","ANN=C","missense_variant","MODERATE","accD2","Rv0974c",153,"p.Asn51Lys"]
[1093406,"A","G","ANN=G","synonymous_variant","LOW","PE_PGRS17","Rv0978c",951,"p.Val317Val"]
[1094413,"G","C","ANN=C","upstream_gene_variant","MODIFIER","Rv0976c","Rv0976c",-4238]
[1094415,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv0976c","Rv0976c",-4240]
[1097023,"G","A","ANN=A","missense_variant","MODERATE","mprA","Rv0981",202,"p.Gly68Ser"]
[1098523,"T","A","ANN=A","missense_variant","MODERATE","mprB","Rv0982",1016,"p.Leu339His"]
[1100234,"T","C","ANN=C","missense_variant","MODERATE","pepD","Rv0983",1169,"p.Leu390Pro"]
[1102484,"G","T","ANN=T","missense_variant","MODERATE","Rv0986","Rv0986",682,"p.Val228Leu"]
[1104690,"T","G","ANN=G","missense_variant","MODERATE","Rv0987","Rv0987",2149,"p.Phe717Val"]
[1105073,"A","G","ANN=G","synonymous_variant","LOW","Rv0987","Rv0987",2532,"p.Gly844Gly"]
[1105284,"G","A","ANN=A","missense_variant","MODERATE","Rv0988","Rv0988",169,"p.Val57Ile"]
[1105518,"T","G","ANN=G","missense_variant","MODERATE","Rv0988","Rv0988",403,"p.Tyr135Asp"]
[1106422,"T","C","ANN=C","missense_variant","MODERATE","grcC2","Rv0989c",961,"p.Ile321Val"]
[1107940,"A","C","ANN=C","missense_variant","MODERATE","Rv0990c","Rv0990c",160,"p.Ser54Ala"]
[1109163,"C","G","ANN=G","missense_variant","MODERATE","Rv0992c","Rv0992c",9,"p.Met3Ile"]
[1109975,"A","G","ANN=G","missense_variant","MODERATE","galU","Rv0993",704,"p.Gln235Arg"]
[1110956,"T","G","ANN=G","missense_variant","MODERATE","moeA1","Rv0994",688,"p.Cys230Gly"]
[1112658,"A","G","ANN=G","missense_variant","MODERATE","Rv0996","Rv0996",275,"p.Asp92Gly"]
[1113290,"G","C","ANN=C","missense_variant","MODERATE","Rv0996","Rv0996",907,"p.Glu303Gln"]
[1119597,"C","G","ANN=G","missense_variant","MODERATE","Rv1002c","Rv1002c",343,"p.Val115Leu"]
[1123597,"A","G","ANN=G","start_lost","HIGH","pabB","Rv1005c",2,"p.Leu1?"]
[1125316,"C","T","ANN=T","missense_variant","MODERATE","Rv1006","Rv1006",1603,"p.Pro535Ser"]
[1126889,"G","C","ANN=C","missense_variant","MODERATE","metS","Rv1007c",115,"p.Arg39Gly"]
[1127648,"C","A","ANN=A","missense_variant","MODERATE","tatD","Rv1008",560,"p.Thr187Asn"]
[1128935,"G","A","ANN=A","missense_variant","MODERATE","rpfB","Rv1009",845,"p.Gly282Glu"]
[1129160,"C","T","ANN=T","missense_variant","MODERATE","rpfB","Rv1009",1070,"p.Ala357Val"]
[1131300,"G","A","ANN=A","missense_variant","MODERATE","Rv1012","Rv1012",173,"p.Ser58Asn"]
[1137582,"T","C","ANN=C","missense_variant","MODERATE","glmU","Rv1018c",479,"p.Glu160Gly"]
[1143832,"A","C","ANN=C","missense_variant","MODERATE","lpqU","Rv1022",97,"p.Thr33Pro"]
[1144585,"A","G","ANN=G","missense_variant","MODERATE","eno","Rv1023",22,"p.Arg8Gly"]
[1148259,"A","G","ANN=G","upstream_gene_variant","MODIFIER","kdpF","Rv1028A",-3661]
[1149128,"C","T","ANN=T","synonymous_variant","LOW","kdpD","Rv1028c",2559,"p.Leu853Leu"]
[1149551,"C","T","ANN=T","synonymous_variant","LOW","kdpD","Rv1028c",2136,"p.Glu712Glu"]
[1150585,"G","A","ANN=A","missense_variant","MODERATE","kdpD","Rv1028c",1102,"p.Pro368Ser"]
[1150803,"C","T","ANN=T","missense_variant","MODERATE","kdpD","Rv1028c",884,"p.Gly295Asp"]
[1151706,"C","T","ANN=T","upstream_gene_variant","MODIFIER","kdpE","Rv1027c",-2599]
[1163134,"T","C","ANN=C","synonymous_variant","LOW","PE8","Rv1040c",243,"p.Gly81Gly"]
[1163749,"G","A","ANN=A","upstream_gene_variant","MODIFIER","Rv1034c","Rv1034c",-4442]
[1164272,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv1034c","Rv1034c",-4965]
[1164336,"G","A","ANN=A","upstream_gene_variant","MODIFIER","Rv1035c","Rv1035c",-4275]
[1164571,"A","G","ANN=G","upstream_gene_variant","MODIFIER","Rv1035c","Rv1035c",-4510]
[1166020,"C","A","ANN=A","missense_variant","MODERATE","Rv1043c","Rv1043c",787,"p.Gly263Cys"]
[1166512,"C","T","ANN=T","missense_variant","MODERATE","Rv1043c","Rv1043c",295,"p.Ala99Thr"]
[1170848,"G","A","ANN=A","upstream_gene_variant","MODIFIER","Rv1043c","Rv1043c",-4042]
[1174782,"G","A","ANN=A","upstream_gene_variant","MODIFIER","Rv1048c","Rv1048c",-2629]
[1176753,"T","C","ANN=C","upstream_gene_variant","MODIFIER","Rv1048c","Rv1048c",-4600]
[1178116,"T","C","ANN=C","synonymous_variant","LOW","Rv1056","Rv1056",489,"p.Thr163Thr"]
[1179141,"T","G","ANN=G","upstream_gene_variant","MODIFIER","Rv1051c","Rv1051c",-4441]
[1190093,"A","C","ANN=C","missense_variant","MODERATE","PE_PGRS19","Rv1067c",332,"p.Leu111Trp"]
[1191817,"A","C","ANN=C","missense_variant","MODERATE","PE_PGRS20","Rv1068c",332,"p.Leu111Trp"]
[1191861,"T","C","ANN=C","synonymous_variant","LOW","PE_PGRS20","Rv1068c",288,"p.Glu96Glu"]
[1198276,"G","A","ANN=A","synonymous_variant","LOW","fadA3","Rv1074c",1098,"p.Gly366Gly"]
[1200418,"A","G","ANN=G","upstream_gene_variant","MODIFIER","echA9","Rv1071c",-4326]
[1203824,"T","C","ANN=C","missense_variant","MODERATE","pra","Rv1078",512,"p.Ile171Thr"]
[1211369,"A","C","ANN=C","missense_variant","MODERATE","Rv1086","Rv1086",775,"p.Ser259Arg"]
[1220570,"G","T","ANN=T","upstream_gene_variant","MODIFIER","coaA","Rv1092c",-384]
[1220680,"T","C","ANN=C","missense_variant","MODERATE","glyA1","Rv1093",107,"p.Val36Ala"]
[1224367,"T","C","ANN=C","upstream_gene_variant","MODIFIER","coaA","Rv1092c",-4181]
[1225198,"C","T","ANN=T","missense_variant","MODERATE","Rv1096","Rv1096",814,"p.Pro272Ser"]
[1226077,"G","A","ANN=A","missense_variant","MODERATE","Rv1097c","Rv1097c",68,"p.Pro23Leu"]
[1230778,"G","A","ANN=A","missense_variant","MODERATE","mazF3","Rv1102c",194,"p.Thr65Ile"]
[1234657,"G","A","ANN=A","synonymous_variant","LOW","xseA","Rv1108c",804,"p.Asp268Asp"]
[1235446,"T","C","ANN=C","synonymous_variant","LOW","xseA","Rv1108c",15,"p.Ser5Ser"]
[1238483,"G","A","ANN=A","missense_variant","MODERATE","Rv1112","Rv1112",229,"p.Val77Ile"]
[1240241,"T","C","ANN=C","missense_variant","MODERATE","Rv1115","Rv1115",55,"p.Ser19Pro"]
[1244393,"C","G","ANN=G","synonymous_variant","LOW","zwf1","Rv1121",687,"p.Val229Val"]
[1248382,"A","G","ANN=G","missense_variant","MODERATE","Rv1125","Rv1125",301,"p.Ser101Gly"]
[1248936,"G","C","ANN=C","synonymous_variant","LOW","Rv1125","Rv1125",855,"p.Pro285Pro"]
[1248978,"T","C","ANN=C","synonymous_variant","LOW","Rv1125","Rv1125",897,"p.Ala299Ala"]
[1250340,"A","G","ANN=G","synonymous_variant","LOW","ppdK","Rv1127c",1065,"p.Ala355Ala"]
[1250357,"T","G","ANN=G","missense_variant","MODERATE","ppdK","Rv1127c",1048,"p.Thr350Pro"]
[1251199,"C","T","ANN=T","missense_variant","MODERATE","ppdK","Rv1127c",206,"p.Gly69Glu"]
[1252164,"T","C","ANN=C","missense_variant","MODERATE","Rv1128c","Rv1128c",809,"p.Glu270Gly"]
[1254562,"A","G","ANN=G","missense_variant","MODERATE","prpD","Rv1130",8,"p.Asp3Gly"]
[1254582,"T","C","ANN=C","missense_variant","MODERATE","prpD","Rv1130",28,"p.Phe10Leu"]
[1256012,"G","T","ANN=T","synonymous_variant","LOW","prpD","Rv1130",1458,"p.Arg486Arg"]
[1260537,"C","T","ANN=T","synonymous_variant","LOW","metE","Rv1133c",810,"p.Leu270Leu"]
[1275957,"T","C","ANN=C","upstream_gene_variant","MODIFIER","Rv1149","Rv1149",-1936]
[1280689,"T","C","ANN=C","missense_variant","MODERATE","omt","Rv1153c",158,"p.Asp53Gly"]
[1280741,"C","T","ANN=T","missense_variant","MODERATE","omt","Rv1153c",106,"p.Ala36Thr"]
[1281118,"T","C","ANN=C","missense_variant","MODERATE","Rv1154c","Rv1154c",367,"p.Thr123Ala"]
[1281771,"T","C","ANN=C","missense_variant","MODERATE","Rv1155","Rv1155",343,"p.Ser115Pro"]
[1287112,"T","C","ANN=C","upstream_gene_variant","MODIFIER","Rv1157c","Rv1157c",-2941]
[1288699,"G","C","ANN=C","missense_variant","MODERATE","narG","Rv1161",1372,"p.Val458Leu"]
[1289789,"A","G","ANN=G","missense_variant","MODERATE","narG","Rv1161",2462,"p.Asp821Gly"]
[1292102,"A","G","ANN=G","synonymous_variant","LOW","narH","Rv1162",1038,"p.Pro346Pro"]
[1294004,"C","T","ANN=T","missense_variant","MODERATE","narI","Rv1164",599,"p.Ala200Val"]
[1294398,"C","T","ANN=T","synonymous_variant","LOW","typA","Rv1165",231,"p.Asp77Asp"]
[1302283,"T","G","ANN=G","missense_variant","MODERATE","PE12","Rv1172c",399,"p.Gln133His"]
[1302899,"A","G","ANN=G","upstream_gene_variant","MODIFIER","Rv1167c","Rv1167c",-4207]
[1306259,"A","G","ANN=G","synonymous_variant","LOW","fadH","Rv1175c",1968,"p.Ala656Ala"]
[1306281,"A","C","ANN=C","missense_variant","MODERATE","fadH","Rv1175c",1946,"p.Ile649Ser"]
[1307598,"C","G","ANN=G","missense_variant","MODERATE","fadH","Rv1175c",629,"p.Cys210Ser"]
[1307958,"G","T","ANN=T","missense_variant","MODERATE","fadH","Rv1175c",269,"p.Thr90Asn"]
[1310316,"C","T","ANN=T","missense_variant","MODERATE","Rv1178","Rv1178",953,"p.Ala318Val"]
[1313338,"A","C","ANN=C","upstream_gene_variant","MODIFIER","Rv1176c","Rv1176c",-4546]
[1315191,"A","C","ANN=C","stop_lost&splice_region_variant","HIGH","pks3","Rv1180",1467,"p.Ter489Tyrext*?"]
[1315884,"G","A","ANN=A","synonymous_variant","LOW","pks4","Rv1181",651,"p.Ala217Ala"]
[1316927,"A","C","ANN=C","missense_variant","MODERATE","pks4","Rv1181",1694,"p.Asp565Ala"]
[1324565,"G","A","ANN=A","synonymous_variant","LOW","Rv1184c","Rv1184c",1047,"p.Arg349Arg"]
[1327890,"G","A","ANN=A","synonymous_variant","LOW","Rv1186c","Rv1186c",1416,"p.Asp472Asp"]
[1328687,"G","C","ANN=C","missense_variant","MODERATE","Rv1186c","Rv1186c",619,"p.Pro207Ala"]
[1338831,"A","C","ANN=C","upstream_gene_variant","MODIFIER","Rv1194c","Rv1194c",-318]
[1340052,"G","T","ANN=T","missense_variant","MODERATE","PPE18","Rv1196",704,"p.Arg235Leu"]
[1340173,"C","T","ANN=T","synonymous_variant","LOW","PPE18","Rv1196",825,"p.Ala275Ala"]
[1340183,"C","G","ANN=G","missense_variant","MODERATE","PPE18","Rv1196",835,"p.Gln279Glu"]
[1340640,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv1194c","Rv1194c",-2127]
[1340667,"A","G","ANN=G","synonymous_variant","LOW","esxK","Rv1197",9,"p.Ser3Ser"]
[1341040,"C","A","ANN=A","missense_variant","MODERATE","esxL","Rv1198",35,"p.Ala12Asp"]
[1341044,"C","T","ANN=T","synonymous_variant","LOW","esxL","Rv1198",39,"p.His13His"]
[1341209,"C","T","ANN=T","synonymous_variant","LOW","esxL","Rv1198",204,"p.Ala68Ala"]
[1344741,"A","G","ANN=G","synonymous_variant","LOW","dapD","Rv1201c",429,"p.Tyr143Tyr"]
[1347173,"C","T","ANN=T","synonymous_variant","LOW","Rv1204c","Rv1204c",1452,"p.Leu484Leu"]
[1351172,"A","G","ANN=G","upstream_gene_variant","MODIFIER","Rv1203c","Rv1203c",-4267]
[1355349,"C","T","ANN=T","missense_variant","MODERATE","glgA","Rv1212c",313,"p.Val105Ile"]
[1355937,"C","T","ANN=T","synonymous_variant","LOW","glgC","Rv1213",102,"p.Phe34Phe"]
[1358940,"C","A","ANN=A","missense_variant","MODERATE","Rv1215c","Rv1215c",505,"p.Ala169Ser"]
[1360209,"T","C","ANN=C","synonymous_variant","LOW","Rv1217c","Rv1217c",1593,"p.Ala531Ala"]
[1361375,"C","T","ANN=T","missense_variant","MODERATE","Rv1217c","Rv1217c",427,"p.Ala143Thr"]
[1362006,"T","C","ANN=C","missense_variant","MODERATE","Rv1218c","Rv1218c",728,"p.Gln243Arg"]
[1366736,"T","C","ANN=C","missense_variant","MODERATE","htrA","Rv1223",862,"p.Phe288Leu"]
[1367208,"G","A","ANN=A","missense_variant","MODERATE","htrA","Rv1223",1334,"p.Ser445Asn"]
[1367484,"T","G","ANN=G","missense_variant","MODERATE","tatB","Rv1224",22,"p.Trp8Gly"]
[1368947,"A","G","ANN=G","missense_variant","MODERATE","Rv1226c","Rv1226c",1349,"p.Val450Ala"]
[1371606,"A","C","ANN=C","upstream_gene_variant","MODIFIER","Rv1225c","Rv1225c",-2885]
[1373909,"A","G","ANN=G","missense_variant","MODERATE","Rv1230c","Rv1230c",289,"p.Ser97Pro"]
[1374065,"T","C","ANN=C","missense_variant","MODERATE","Rv1230c","Rv1230c",133,"p.Ser45Gly"]
[1375724,"A","C","ANN=C","missense_variant","MODERATE","Rv1232c","Rv1232c",445,"p.Cys149Gly"]
[1376624,"C","T","ANN=T","missense_variant","MODERATE","Rv1233c","Rv1233c",203,"p.Gly68Asp"]
[1376691,"T","C","ANN=C","missense_variant","MODERATE","Rv1233c","Rv1233c",136,"p.Asn46Asp"]
[1377140,"A","G","ANN=G","synonymous_variant","LOW","Rv1234","Rv1234",165,"p.Glu55Glu"]
[1382628,"T","C","ANN=C","missense_variant","MODERATE","corA","Rv1239c",415,"p.Lys139Glu"]
[1386922,"C","T","ANN=T","synonymous_variant","LOW","lpqZ","Rv1244",66,"p.Gly22Gly"]
[1387580,"C","A","ANN=A","missense_variant","MODERATE","lpqZ","Rv1244",724,"p.Gln242Lys"]
[1390089,"C","T","ANN=T","synonymous_variant","LOW","Rv1248c","Rv1248c",2964,"p.Ala988Ala"]
[1390763,"C","T","ANN=T","missense_variant","MODERATE","Rv1248c","Rv1248c",2290,"p.Val764Met"]
[1393003,"T","G","ANN=G","missense_variant","MODERATE","Rv1248c","Rv1248c",50,"p.Glu17Ala"]
[1393626,"A","G","ANN=G","synonymous_variant","LOW","Rv1249c","Rv1249c",357,"p.Leu119Leu"]
[1393700,"C","T","ANN=T","missense_variant","MODERATE","Rv1249c","Rv1249c",283,"p.Ala95Thr"]
[1395010,"A","G","ANN=G","missense_variant","MODERATE","Rv1250","Rv1250",832,"p.Arg278Gly"]
[1396922,"T","C","ANN=C","synonymous_variant","LOW","Rv1251c","Rv1251c",2319,"p.Thr773Thr"]
[1397201,"A","G","ANN=G","synonymous_variant","LOW","Rv1251c","Rv1251c",2040,"p.Asn680Asn"]
[1400396,"A","G","ANN=G","missense_variant","MODERATE","deaD","Rv1253",427,"p.Met143Val"]
[1410062,"G","C","ANN=C","missense_variant","MODERATE","Rv1262c","Rv1262c",311,"p.Pro104Arg"]
[1411210,"T","G","ANN=G","synonymous_variant","LOW","amiB2","Rv1263",780,"p.Val260Val"]
[1412503,"C","T","ANN=T","missense_variant","MODERATE","Rv1264","Rv1264",610,"p.Arg204Cys"]
[1413148,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv1261c","Rv1261c",-3215]
[1414021,"C","T","ANN=T","missense_variant","MODERATE","pknH","Rv1266c",1820,"p.Arg607Gln"]
[1414653,"C","T","ANN=T","synonymous_variant","LOW","pknH","Rv1266c",1188,"p.Pro396Pro"]
[1415097,"C","G","ANN=G","synonymous_variant","LOW","pknH","Rv1266c",744,"p.Ala248Ala"]
[1417554,"G","C","ANN=C","upstream_gene_variant","MODIFIER","mcr11","EBG00000313343",-4330]
[1423826,"C","T","ANN=T","synonymous_variant","LOW","Rv1273c","Rv1273c",225,"p.Ala75Ala"]
[1424699,"T","C","ANN=C","missense_variant","MODERATE","lprB","Rv1274",503,"p.Leu168Pro"]
[1425319,"G","A","ANN=A","upstream_gene_variant","MODIFIER","Rv1272c","Rv1272c",-3014]
[1425641,"T","A","ANN=A","missense_variant","MODERATE","Rv1276c","Rv1276c",274,"p.Thr92Ser"]
[1427476,"C","T","ANN=T","synonymous_variant","LOW","Rv1278","Rv1278",63,"p.Phe21Phe"]
[1437438,"C","A","ANN=A","synonymous_variant","LOW","canA","Rv1284",115,"p.Arg39Arg"]
[1439938,"C","T","ANN=T","synonymous_variant","LOW","cysN","Rv1286",1032,"p.Arg344Arg"]
[1440469,"C","G","ANN=G","synonymous_variant","LOW","cysN","Rv1286",1563,"p.Pro521Pro"]
[1442734,"C","G","ANN=G","upstream_gene_variant","MODIFIER","Rv1289","Rv1289",-33]
[1445781,"A","G","ANN=G","synonymous_variant","LOW","Rv1291c","Rv1291c",54,"p.Ala18Ala"]
[1454811,"C","T","ANN=T","synonymous_variant","LOW","rho","Rv1297",1608,"p.Asn536Asn"]
[1457144,"C","T","ANN=T","missense_variant","MODERATE","hemK","Rv1300",580,"p.Arg194Cys"]
[1458076,"T","G","ANN=G","synonymous_variant","LOW","Rv1301","Rv1301",519,"p.Gly173Gly"]
[1458144,"C","A","ANN=A","missense_variant","MODERATE","Rv1301","Rv1301",587,"p.Pro196Gln"]
[1459364,"T","G","ANN=G","missense_variant","MODERATE","rfe","Rv1302",1070,"p.Val357Gly"]
[1460666,"C","T","ANN=T","synonymous_variant","LOW","atpB","Rv1304",423,"p.Val141Val"]
[1462220,"G","C","ANN=C","synonymous_variant","LOW","atpH","Rv1307",378,"p.Val126Val"]
[1467695,"C","T","ANN=T","missense_variant","MODERATE","Rv1312","Rv1312",8,"p.Ala3Val"]
[1467735,"G","A","ANN=A","synonymous_variant","LOW","Rv1312","Rv1312",48,"p.Gly16Gly"]
[1471217,"C","T","ANN=T","synonymous_variant","LOW","murA","Rv1315",897,"p.Phe299Phe"]
[1471659,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv1313c","Rv1313c",-2154]
[1478312,"C","T","ANN=T","synonymous_variant","LOW","alkA","Rv1317c",807,"p.Leu269Leu"]
[1479085,"T","C","ANN=C","missense_variant","MODERATE","alkA","Rv1317c",34,"p.Ile12Val"]
[1480972,"T","C","ANN=C","synonymous_variant","LOW","Rv1319c","Rv1319c",1530,"p.Glu510Glu"]
[1482627,"T","C","ANN=C","missense_variant","MODERATE","Rv1320c","Rv1320c",1591,"p.Thr531Ala"]
[1484708,"A","C","ANN=C","missense_variant","MODERATE","Rv1321","Rv1321",430,"p.Ser144Arg"]
[1490905,"A","G","ANN=G","missense_variant","MODERATE","glgB","Rv1326c",1408,"p.Ser470Pro"]
[1490911,"G","A","ANN=A","missense_variant","MODERATE","glgB","Rv1326c",1402,"p.Pro468Ser"]
[1492194,"T","C","ANN=C","missense_variant","MODERATE","glgB","Rv1326c",119,"p.Asp40Gly"]
[1492605,"C","T","ANN=T","synonymous_variant","LOW","glgE","Rv1327c",1821,"p.Ala607Ala"]
[1496158,"A","G","ANN=G","missense_variant","MODERATE","glgP","Rv1328",1595,"p.Asp532Gly"]
[1496289,"G","T","ANN=T","missense_variant","MODERATE","glgP","Rv1328",1726,"p.Val576Phe"]
[1496964,"G","T","ANN=T","missense_variant","MODERATE","glgP","Rv1328",2401,"p.Ala801Ser"]
[1499274,"C","G","ANN=G","missense_variant","MODERATE","pncB1","Rv1330c",1286,"p.Gly429Ala"]
[1499291,"C","T","ANN=T","synonymous_variant","LOW","pncB1","Rv1330c",1269,"p.Gly423Gly"]
[1501225,"T","G","ANN=G","synonymous_variant","LOW","Rv1332","Rv1332",300,"p.Arg100Arg"]
[1501979,"G","A","ANN=A","synonymous_variant","LOW","Rv1333","Rv1333",381,"p.Thr127Thr"]
[1505194,"T","C","ANN=C","synonymous_variant","LOW","murI","Rv1338",120,"p.Gly40Gly"]
[1505973,"G","A","ANN=A","synonymous_variant","LOW","Rv1339","Rv1339",57,"p.Arg19Arg"]
[1508682,"T","G","ANN=G","missense_variant","MODERATE","lprD","Rv1343c",242,"p.Glu81Ala"]
[1523175,"A","C","ANN=C","synonymous_variant","LOW","moeY","Rv1355c",858,"p.Ala286Ala"]
[1523791,"A","G","ANN=G","missense_variant","MODERATE","moeY","Rv1355c",242,"p.Leu81Pro"]
[1526819,"C","A","ANN=A","synonymous_variant","LOW","Rv1358","Rv1358",208,"p.Arg70Arg"]
[1527936,"A","C","ANN=C","missense_variant","MODERATE","Rv1358","Rv1358",1325,"p.Asp442Ala"]
[1532728,"C","T","ANN=T","synonymous_variant","LOW","PPE19","Rv1361c",906,"p.Ser302Ser"]
[1540141,"T","C","ANN=C","missense_variant","MODERATE","Rv1367c","Rv1367c",505,"p.Ile169Val"]
[1544255,"C","T","ANN=T","synonymous_variant","LOW","Rv1371","Rv1371",897,"p.Arg299Arg"]
[1546703,"C","T","ANN=T","missense_variant","MODERATE","Rv1373","Rv1373",692,"p.Pro231Leu"]
[1547125,"T","C","ANN=C","missense_variant","MODERATE","Rv1374c","Rv1374c",406,"p.Thr136Ala"]
[1548087,"G","A","ANN=A","missense_variant","MODERATE","Rv1375","Rv1375",256,"p.Gly86Arg"]
[1548149,"G","A","ANN=A","synonymous_variant","LOW","Rv1375","Rv1375",318,"p.Pro106Pro"]
[1548796,"G","C","ANN=C","missense_variant","MODERATE","Rv1375","Rv1375",965,"p.Arg322Pro"]
[1549854,"G","C","ANN=C","missense_variant","MODERATE","Rv1376","Rv1376",707,"p.Arg236Pro"]
[1552547,"G","A","ANN=A","missense_variant","MODERATE","Rv1378c","Rv1378c",109,"p.Arg37Trp"]
[1552630,"C","T","ANN=T","missense_variant","MODERATE","Rv1378c","Rv1378c",26,"p.Arg9His"]
[1554752,"G","T","ANN=T","missense_variant","MODERATE","pyrC","Rv1381",565,"p.Val189Phe"]
[1556323,"C","G","ANN=G","missense_variant","MODERATE","carA","Rv1383",353,"p.Ala118Gly"]
[1559562,"C","A","ANN=A","missense_variant","MODERATE","carB","Rv1384",2462,"p.Ala821Glu"]
[1559596,"C","T","ANN=T","synonymous_variant","LOW","carB","Rv1384",2496,"p.His832His"]
[1561411,"G","A","ANN=A","upstream_gene_variant","MODIFIER","PE15","Rv1386",-53]
[1561903,"A","C","ANN=C","synonymous_variant","LOW","PPE20","Rv1387",135,"p.Ser45Ser"]
[1562049,"T","C","ANN=C","missense_variant","MODERATE","PPE20","Rv1387",281,"p.Val94Ala"]
[1563717,"C","T","ANN=T","synonymous_variant","LOW","mihF","Rv1388",24,"p.Val8Val"]
[1570566,"C","A","ANN=A","missense_variant","MODERATE","cyp132","Rv1394c",404,"p.Arg135Leu"]
[1573660,"T","G","ANN=G","missense_variant","MODERATE","PE_PGRS25","Rv1396c",198,"p.Arg66Ser"]
[1573968,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv1393c","Rv1393c",-4381]
[1574206,"T","C","ANN=C","missense_variant","MODERATE","vapC10","Rv1397c",308,"p.Asp103Gly"]
[1582051,"T","C","ANN=C","upstream_gene_variant","MODIFIER","Rv1403c","Rv1403c",-1629]
[1584379,"A","C","ANN=C","missense_variant","MODERATE","fmu","Rv1407",1279,"p.Ile427Leu"]
[1585283,"A","C","ANN=C","missense_variant","MODERATE","ribG","Rv1409",90,"p.Lys30Asn"]
[1585404,"G","A","ANN=A","missense_variant","MODERATE","ribG","Rv1409",211,"p.Ala71Thr"]
[1588899,"G","T","ANN=T","synonymous_variant","LOW","ribC","Rv1412",333,"p.Ala111Ala"]
[1589311,"T","G","ANN=G","upstream_gene_variant","MODIFIER","Rv1410c","Rv1410c",-1545]
[1593456,"C","T","ANN=T","upstream_gene_variant","MODIFIER","lprG","Rv1411c",-4974]
[1596734,"C","T","ANN=T","synonymous_variant","LOW","Rv1421","Rv1421",756,"p.Arg252Arg"]
[1597137,"C","T","ANN=T","missense_variant","MODERATE","Rv1422","Rv1422",257,"p.Ala86Val"]
[1600685,"C","T","ANN=T","missense_variant","MODERATE","Rv1425","Rv1425",1028,"p.Pro343Leu"]
[1608276,"A","C","ANN=C","missense_variant","MODERATE","Rv1431","Rv1431",194,"p.Asn65Thr"]
[1609445,"A","C","ANN=C","missense_variant","MODERATE","Rv1431","Rv1431",1363,"p.Lys455Gln"]
[1609840,"A","G","ANN=G","synonymous_variant","LOW","Rv1431","Rv1431",1758,"p.Pro586Pro"]
[1611283,"T","C","ANN=C","upstream_gene_variant","MODIFIER","Rv1433","Rv1433",-151]
[1612752,"C","T","ANN=T","missense_variant","MODERATE","Rv1435c","Rv1435c",199,"p.Ala67Thr"]
[1613035,"T","C","ANN=C","upstream_gene_variant","MODIFIER","Rv1435c","Rv1435c",-85]
[1624791,"C","G","ANN=G","missense_variant","MODERATE","opcA","Rv1446c",575,"p.Arg192Pro"]
[1627351,"T","C","ANN=C","missense_variant","MODERATE","tal","Rv1448c",730,"p.Thr244Ala"]
[1630148,"A","C","ANN=C","missense_variant","MODERATE","tkt","Rv1449c",52,"p.Tyr18Asp"]
[1634633,"A","T","ANN=T","upstream_gene_variant","MODIFIER","tkt","Rv1449c",-4434]
[1634636,"T","A","ANN=A","upstream_gene_variant","MODIFIER","tkt","Rv1449c",-4437]
[1635230,"G","A","ANN=A","missense_variant","MODERATE","ctaB","Rv1451",202,"p.Ala68Thr"]
[1638182,"C","T","ANN=T","synonymous_variant","LOW","PE_PGRS28","Rv1452c",48,"p.Ser16Ser"]
[1638183,"G","A","ANN=A","missense_variant","MODERATE","PE_PGRS28","Rv1452c",47,"p.Ser16Leu"]
[1638194,"G","C","ANN=C","synonymous_variant","LOW","PE_PGRS28","Rv1452c",36,"p.Ala12Ala"]
[1639418,"A","G","ANN=G","synonymous_variant","LOW","Rv1453","Rv1453",1038,"p.Leu346Leu"]
[1639594,"C","A","ANN=A","missense_variant","MODERATE","Rv1453","Rv1453",1214,"p.Pro405Gln"]
[1639643,"T","C","ANN=C","synonymous_variant","LOW","Rv1453","Rv1453",1263,"p.Arg421Arg"]
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[2099793,"A","T","ANN=T","missense_variant","MODERATE","ureF","Rv1851",100,"p.Met34Leu"]
[2104270,"C","T","ANN=T","missense_variant","MODERATE","Rv1856c","Rv1856c",554,"p.Arg185His"]
[2107511,"C","T","ANN=T","missense_variant","MODERATE","modC","Rv1859",938,"p.Thr313Met"]
[2108141,"T","C","ANN=C","missense_variant","MODERATE","apa","Rv1860",406,"p.Phe136Leu"]
[2108890,"A","C","ANN=C","upstream_gene_variant","MODIFIER","Rv1855c","Rv1855c",-4783]
[2109474,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv1856c","Rv1856c",-4651]
[2110365,"A","C","ANN=C","synonymous_variant","LOW","adhA","Rv1862",822,"p.Thr274Thr"]
[2113188,"G","C","ANN=C","missense_variant","MODERATE","Rv1866","Rv1866",49,"p.Glu17Gln"]
[2116903,"C","T","ANN=T","synonymous_variant","LOW","Rv1867","Rv1867",1140,"p.Gly380Gly"]
[2120777,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv1869c","Rv1869c",-82]
[2120796,"T","A","ANN=A","stop_lost&splice_region_variant","HIGH","Rv1870c","Rv1870c",635,"p.Ter212Leuext*?"]
[2122625,"A","G","ANN=G","missense_variant","MODERATE","lldD2","Rv1872c",527,"p.Val176Ala"]
[2122976,"C","G","ANN=G","missense_variant","MODERATE","lldD2","Rv1872c",176,"p.Gly59Ala"]
[2123169,"T","G","ANN=G","upstream_gene_variant","MODIFIER","Rv1869c","Rv1869c",-2474]
[2123278,"T","G","ANN=G","synonymous_variant","LOW","Rv1873","Rv1873",105,"p.Gly35Gly"]
[2125863,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv1870c","Rv1870c",-4433]
[2128372,"A","G","ANN=G","synonymous_variant","LOW","glnA3","Rv1878",351,"p.Thr117Thr"]
[2128844,"G","A","ANN=A","missense_variant","MODERATE","glnA3","Rv1878",823,"p.Ala275Thr"]
[2128870,"A","G","ANN=G","synonymous_variant","LOW","glnA3","Rv1878",849,"p.Leu283Leu"]
[2129281,"C","A","ANN=A","synonymous_variant","LOW","glnA3","Rv1878",1260,"p.Ala420Ala"]
[2130529,"A","G","ANN=G","downstream_gene_variant","MODIFIER","bfrA","Rv1876","*4710"]
[2135870,"T","C","ANN=C","upstream_gene_variant","MODIFIER","cyp140","Rv1880c",-4013]
[2137903,"G","A","ANN=A","synonymous_variant","LOW","Rv1888c","Rv1888c",177,"p.Gly59Gly"]
[2143328,"G","C","ANN=C","missense_variant","MODERATE","Rv1895","Rv1895",808,"p.Val270Leu"]
[2144637,"G","A","ANN=A","synonymous_variant","LOW","Rv1897c","Rv1897c",246,"p.Asp82Asp"]
[2145878,"A","G","ANN=G","missense_variant","MODERATE","lppD","Rv1899c",368,"p.Leu123Pro"]
[2147022,"A","C","ANN=C","missense_variant","MODERATE","lipJ","Rv1900c",612,"p.Ile204Met"]
[2147125,"C","T","ANN=T","missense_variant","MODERATE","lipJ","Rv1900c",509,"p.Arg170Gln"]
[2151345,"C","T","ANN=T","missense_variant","MODERATE","Rv1904","Rv1904",392,"p.Thr131Met"]
[2151678,"G","T","ANN=T","missense_variant","MODERATE","aao","Rv1905c",718,"p.Pro240Thr"]
[2154724,"C","A","ANN=A","missense_variant","MODERATE","katG","Rv1908c",1388,"p.Arg463Leu"]
[2155503,"G","A","ANN=A","synonymous_variant","LOW","katG","Rv1908c",609,"p.Thr203Thr"]
[2156025,"G","T","ANN=T","synonymous_variant","LOW","katG","Rv1908c",87,"p.Pro29Pro"]
[2156868,"G","T","ANN=T","synonymous_variant","LOW","Rv1910c","Rv1910c",432,"p.Gly144Gly"]
[2156922,"A","T","ANN=T","synonymous_variant","LOW","Rv1910c","Rv1910c",378,"p.Thr126Thr"]
[2158109,"T","C","ANN=C","missense_variant","MODERATE","fadB5","Rv1912c",983,"p.Asp328Gly"]
[2160998,"G","A","ANN=A","missense_variant","MODERATE","aceAa","Rv1915",536,"p.Gly179Asp"]
[2163060,"G","A","ANN=A","synonymous_variant","LOW","PPE34","Rv1917c",4252,"p.Leu1418Leu"]
[2165286,"A","C","ANN=C","missense_variant","MODERATE","PPE34","Rv1917c",2026,"p.Ser676Ala"]
[2167926,"A","G","ANN=G","missense_variant","MODERATE","PPE35","Rv1918c",2687,"p.Leu896Ser"]
[2168011,"T","G","ANN=G","missense_variant","MODERATE","PPE35","Rv1918c",2602,"p.Ser868Arg"]
[2168319,"G","A","ANN=A","missense_variant","MODERATE","PPE35","Rv1918c",2294,"p.Thr765Ile"]
[2172012,"G","C","ANN=C","missense_variant","MODERATE","Rv1920","Rv1920",390,"p.Met130Ile"]
[2174586,"C","A","ANN=A","synonymous_variant","LOW","Rv1922","Rv1922",520,"p.Arg174Arg"]
[2175390,"G","A","ANN=A","missense_variant","MODERATE","lipD","Rv1923",218,"p.Gly73Asp"]
[2175713,"G","A","ANN=A","missense_variant","MODERATE","lipD","Rv1923",541,"p.Asp181Asn"]
[2177073,"T","C","ANN=C","upstream_gene_variant","MODIFIER","lppF","Rv1921c",-3278]
[2196715,"G","C","ANN=C","missense_variant","MODERATE","Rv1945","Rv1945",727,"p.Val243Leu"]
[2197669,"C","T","ANN=T","missense_variant","MODERATE","lppG","Rv1946c",292,"p.Ala98Thr"]
[2199052,"C","G","ANN=G","missense_variant","MODERATE","Rv1948c","Rv1948c",13,"p.Gly5Arg"]
[2199416,"A","G","ANN=G","missense_variant","MODERATE","Rv1949c","Rv1949c",619,"p.Phe207Leu"]
[2201296,"T","C","ANN=C","missense_variant","MODERATE","Rv1954c","Rv1954c",449,"p.His150Arg"]
[2222308,"T","C","ANN=C","missense_variant","MODERATE","Rv1979c","Rv1979c",857,"p.Asp286Gly"]
[2223293,"T","C","ANN=C","upstream_gene_variant","MODIFIER","Rv1976c","Rv1976c",-4042]
[2225175,"A","C","ANN=C","missense_variant","MODERATE","nrdF1","Rv1981c",14,"p.Leu5Arg"]
[2228967,"A","G","ANN=G","upstream_gene_variant","MODIFIER","mpt64","Rv1980c",-4938]
[2229801,"C","G","ANN=G","synonymous_variant","LOW","Rv1985c","Rv1985c",102,"p.Pro34Pro"]
[2231486,"A","G","ANN=G","upstream_gene_variant","MODIFIER","cfp21","Rv1984c",-2925]
[2241742,"A","G","ANN=G","synonymous_variant","LOW","ctpF","Rv1997",1584,"p.Pro528Pro"]
[2243034,"T","G","ANN=G","missense_variant","MODERATE","Rv1998c","Rv1998c",688,"p.Ser230Arg"]
[2244343,"G","T","ANN=T","synonymous_variant","LOW","Rv1999c","Rv1999c",796,"p.Arg266Arg"]
[2246960,"G","C","ANN=C","synonymous_variant","LOW","Rv2001","Rv2001",129,"p.Val43Val"]
[2247169,"G","A","ANN=A","missense_variant","MODERATE","Rv2001","Rv2001",338,"p.Arg113His"]
[2247677,"A","C","ANN=C","synonymous_variant","LOW","fabG3","Rv2002",18,"p.Ile6Ile"]
[2251999,"A","G","ANN=G","upstream_gene_variant","MODIFIER","Rv2003c","Rv2003c",-2579]
[2252239,"G","A","ANN=A","missense_variant","MODERATE","otsB1","Rv2006",238,"p.Gly80Ser"]
[2253099,"A","C","ANN=C","synonymous_variant","LOW","otsB1","Rv2006",1098,"p.Ala366Ala"]
[2258216,"A","G","ANN=G","missense_variant","MODERATE","vapB15","Rv2009",187,"p.Asn63Asp"]
[2260100,"C","T","ANN=T","upstream_gene_variant","MODIFIER","fdxA","Rv2007c",-3672]
[2260525,"C","T","ANN=T","upstream_gene_variant","MODIFIER","fdxA","Rv2007c",-4097]
[2261241,"A","G","ANN=G","synonymous_variant","LOW","Rv2014","Rv2014",144,"p.Glu48Glu"]
[2261693,"G","C","ANN=C","upstream_gene_variant","MODIFIER","Rv2008c","Rv2008c",-3751]
[2262173,"A","C","ANN=C","synonymous_variant","LOW","Rv2015c","Rv2015c",900,"p.Arg300Arg"]
[2262239,"A","G","ANN=G","synonymous_variant","LOW","Rv2015c","Rv2015c",834,"p.Phe278Phe"]
[2264782,"C","A","ANN=A","missense_variant","MODERATE","Rv2017","Rv2017",785,"p.Ala262Glu"]
[2265059,"T","G","ANN=G","upstream_gene_variant","MODIFIER","Rv2015c","Rv2015c",-1987]
[2265626,"A","G","ANN=G","missense_variant","MODERATE","Rv2018","Rv2018",347,"p.Asp116Gly"]
[2267976,"G","T","ANN=T","synonymous_variant","LOW","Rv2023c","Rv2023c",133,"p.Arg45Arg"]
[2268397,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv2020c","Rv2020c",-1677]
[2269376,"G","A","ANN=A","missense_variant","MODERATE","Rv2024c","Rv2024c",865,"p.Arg289Cys"]
[2269780,"T","C","ANN=C","missense_variant","MODERATE","Rv2024c","Rv2024c",461,"p.Asp154Gly"]
[2270102,"A","G","ANN=G","missense_variant","MODERATE","Rv2024c","Rv2024c",139,"p.Trp47Arg"]
[2271820,"A","G","ANN=G","upstream_gene_variant","MODIFIER","Rv2021c","Rv2021c",-4710]
[2274463,"A","C","ANN=C","missense_variant","MODERATE","dosT","Rv2027c",46,"p.Leu16Val"]
[2280081,"C","T","ANN=T","missense_variant","MODERATE","acg","Rv2032",953,"p.Pro318Leu"]
[2282376,"C","T","ANN=T","missense_variant","MODERATE","Rv2036","Rv2036",278,"p.Ala93Val"]
[2282377,"C","T","ANN=T","synonymous_variant","LOW","Rv2036","Rv2036",279,"p.Ala93Ala"]
[2282787,"C","T","ANN=T","missense_variant","MODERATE","Rv2037c","Rv2037c",935,"p.Cys312Tyr"]
[2285251,"C","A","ANN=A","missense_variant","MODERATE","Rv2039c","Rv2039c",391,"p.Val131Phe"]
[2287121,"A","G","ANN=G","synonymous_variant","LOW","Rv2041c","Rv2041c",726,"p.Asp242Asp"]
[2287482,"G","A","ANN=A","missense_variant","MODERATE","Rv2041c","Rv2041c",365,"p.Ala122Val"]
[2289073,"G","C","ANN=C","missense_variant","MODERATE","pncA","Rv2043c",169,"p.His57Asp"]
[2291317,"T","C","ANN=C","missense_variant","MODERATE","lppI","Rv2046",49,"p.Ser17Pro"]
[2294846,"C","T","ANN=T","synonymous_variant","LOW","pks12","Rv2048c",12141,"p.Ala4047Ala"]
[2294849,"C","A","ANN=A","synonymous_variant","LOW","pks12","Rv2048c",12138,"p.Leu4046Leu"]
[2295304,"C","T","ANN=T","missense_variant","MODERATE","pks12","Rv2048c",11683,"p.Gly3895Ser"]
[2295943,"A","G","ANN=G","missense_variant","MODERATE","pks12","Rv2048c",11044,"p.Cys3682Arg"]
[2296042,"G","C","ANN=C","missense_variant","MODERATE","pks12","Rv2048c",10945,"p.Pro3649Ala"]
[2298193,"C","T","ANN=T","missense_variant","MODERATE","pks12","Rv2048c",8794,"p.Gly2932Ser"]
[2300237,"A","G","ANN=G","synonymous_variant","LOW","pks12","Rv2048c",6750,"p.Ala2250Ala"]
[2300546,"A","T","ANN=T","missense_variant","MODERATE","pks12","Rv2048c",6441,"p.His2147Gln"]
[2300552,"T","G","ANN=G","synonymous_variant","LOW","pks12","Rv2048c",6435,"p.Pro2145Pro"]
[2300555,"A","G","ANN=G","synonymous_variant","LOW","pks12","Rv2048c",6432,"p.Asp2144Asp"]
[2301089,"T","C","ANN=C","synonymous_variant","LOW","pks12","Rv2048c",5898,"p.Leu1966Leu"]
[2301394,"C","T","ANN=T","missense_variant","MODERATE","pks12","Rv2048c",5593,"p.Gly1865Ser"]
[2311099,"C","G","ANN=G","synonymous_variant","LOW","Rv2052c","Rv2052c",1419,"p.Pro473Pro"]
[2320530,"A","G","ANN=G","missense_variant","MODERATE","cobN","Rv2062c",224,"p.Val75Ala"]
[2328543,"T","C","ANN=C","missense_variant","MODERATE","cobM","Rv2071c",435,"p.Ile145Met"]
[2328594,"G","A","ANN=A","synonymous_variant","LOW","cobM","Rv2071c",384,"p.Gly128Gly"]
[2328627,"C","T","ANN=T","synonymous_variant","LOW","cobM","Rv2071c",351,"p.Ala117Ala"]
[2329466,"C","T","ANN=T","synonymous_variant","LOW","cobL","Rv2072c",681,"p.Pro227Pro"]
[2329533,"A","G","ANN=G","missense_variant","MODERATE","cobL","Rv2072c",614,"p.Leu205Pro"]
[2335075,"A","G","ANN=G","missense_variant","MODERATE","Rv2078","Rv2078",17,"p.Glu6Gly"]
[2335127,"C","T","ANN=T","synonymous_variant","LOW","Rv2078","Rv2078",69,"p.His23His"]
[2335494,"A","G","ANN=G","missense_variant","MODERATE","Rv2079","Rv2079",140,"p.Tyr47Cys"]
[2336001,"C","T","ANN=T","missense_variant","MODERATE","Rv2079","Rv2079",647,"p.Pro216Leu"]
[2337373,"T","C","ANN=C","missense_variant","MODERATE","lppJ","Rv2080",68,"p.Val23Ala"]
[2339255,"A","G","ANN=G","missense_variant","MODERATE","Rv2082","Rv2082",547,"p.Thr183Ala"]
[2340621,"C","G","ANN=G","missense_variant","MODERATE","Rv2082","Rv2082",1913,"p.Pro638Arg"]
[2340689,"C","T","ANN=T","synonymous_variant","LOW","Rv2082","Rv2082",1981,"p.Leu661Leu"]
[2341030,"G","A","ANN=A","missense_variant","MODERATE","Rv2083","Rv2083",160,"p.Ala54Thr"]
[2341636,"C","G","ANN=G","missense_variant","MODERATE","Rv2083","Rv2083",766,"p.Leu256Val"]
[2345037,"C","A","ANN=A","synonymous_variant","LOW","pknJ","Rv2088",627,"p.Leu209Leu"]
[2348446,"C","G","ANN=G","missense_variant","MODERATE","Rv2090","Rv2090",1074,"p.Phe358Leu"]
[2350186,"A","G","ANN=G","synonymous_variant","LOW","helY","Rv2092c",1869,"p.Arg623Arg"]
[2351522,"G","A","ANN=A","missense_variant","MODERATE","helY","Rv2092c",533,"p.Thr178Met"]
[2361604,"C","G","ANN=G","synonymous_variant","LOW","helZ","Rv2101",1365,"p.Val455Val"]
[2362041,"C","A","ANN=A","missense_variant","MODERATE","helZ","Rv2101",1802,"p.Pro601Gln"]
[2362193,"G","T","ANN=T","missense_variant","MODERATE","helZ","Rv2101",1954,"p.Ala652Ser"]
[2369186,"G","C","ANN=C","missense_variant","MODERATE","prcA","Rv2109c",544,"p.Arg182Gly"]
[2369326,"C","G","ANN=G","missense_variant","MODERATE","prcA","Rv2109c",404,"p.Arg135Pro"]
[2373248,"A","C","ANN=C","missense_variant","MODERATE","Rv2113","Rv2113",619,"p.Thr207Pro"]
[2373763,"C","T","ANN=T","synonymous_variant","LOW","Rv2113","Rv2113",1134,"p.Tyr378Tyr"]
[2376425,"A","G","ANN=G","upstream_gene_variant","MODIFIER","dop","Rv2112c",-3856]
[2379743,"C","G","ANN=G","upstream_gene_variant","MODIFIER","mpa","Rv2115c",-3453]
[2381610,"T","C","ANN=C","synonymous_variant","LOW","PPE37","Rv2123",540,"p.Ser180Ser"]
[2381633,"G","T","ANN=T","missense_variant","MODERATE","PPE37","Rv2123",563,"p.Ser188Ile"]
[2383814,"T","C","ANN=C","missense_variant","MODERATE","metH","Rv2124c",2254,"p.Ile752Val"]
[2384763,"A","C","ANN=C","synonymous_variant","LOW","metH","Rv2124c",1305,"p.Arg435Arg"]
[2386389,"G","A","ANN=A","missense_variant","MODERATE","Rv2125","Rv2125",97,"p.Gly33Ser"]
[2387733,"T","C","ANN=C","synonymous_variant","LOW","PE_PGRS37","Rv2126c",240,"p.Glu80Glu"]
[2388641,"G","A","ANN=A","missense_variant","MODERATE","ansP1","Rv2127",26,"p.Gly9Asp"]
[2388745,"G","A","ANN=A","missense_variant","MODERATE","ansP1","Rv2127",130,"p.Gly44Ser"]
[2390299,"A","G","ANN=G","upstream_gene_variant","MODIFIER","metH","Rv2124c",-4232]
[2403699,"G","C","ANN=C","synonymous_variant","LOW","Rv2143","Rv2143",723,"p.Leu241Leu"]
[2413131,"A","G","ANN=G","missense_variant","MODERATE","murG","Rv2153c",221,"p.Leu74Pro"]
[2413246,"C","A","ANN=A","missense_variant","MODERATE","murG","Rv2153c",106,"p.Val36Leu"]
[2415351,"C","A","ANN=A","synonymous_variant","LOW","murD","Rv2155c",1044,"p.Val348Val"]
[2415656,"G","C","ANN=C","missense_variant","MODERATE","murD","Rv2155c",739,"p.Arg247Gly"]
[2419142,"A","G","ANN=G","synonymous_variant","LOW","murE","Rv2158c",1467,"p.Val489Val"]
[2421816,"A","G","ANN=G","missense_variant","MODERATE","Rv2160A","Rv2160A",463,"p.Cys155Arg"]
[2424864,"A","G","ANN=G","upstream_gene_variant","MODIFIER","murE","Rv2158c",-4256]
[2424925,"A","G","ANN=G","upstream_gene_variant","MODIFIER","murE","Rv2158c",-4317]
[2424954,"A","C","ANN=C","upstream_gene_variant","MODIFIER","murE","Rv2158c",-4346]
[2425471,"T","C","ANN=C","synonymous_variant","LOW","pbpB","Rv2163c",1617,"p.Arg539Arg"]
[2437259,"G","T","ANN=T","missense_variant","MODERATE","mptA","Rv2174",1351,"p.Ala451Ser"]
[2437837,"G","A","ANN=A","missense_variant","MODERATE","Rv2175c","Rv2175c",50,"p.Pro17Leu"]
[2438094,"T","G","ANN=G","missense_variant","MODERATE","pknL","Rv2176",154,"p.Ser52Ala"]
[2440926,"G","T","ANN=T","missense_variant","MODERATE","aroG","Rv2178c",795,"p.Asp265Glu"]
[2442749,"G","T","ANN=T","missense_variant","MODERATE","Rv2180c","Rv2180c",466,"p.Pro156Thr"]
[2447426,"G","T","ANN=T","synonymous_variant","LOW","TB16.3","Rv2185c",75,"p.Ile25Ile"]
[2447539,"A","G","ANN=G","upstream_gene_variant","MODIFIER","Rv2180c","Rv2180c",-4325]
[2448458,"C","T","ANN=T","missense_variant","MODERATE","fadD15","Rv2187",299,"p.Thr100Ile"]
[2449295,"G","A","ANN=A","missense_variant","MODERATE","fadD15","Rv2187",1136,"p.Gly379Glu"]
[2454932,"G","A","ANN=A","missense_variant","MODERATE","Rv2191","Rv2191",1114,"p.Ala372Thr"]
[2454934,"A","G","ANN=G","synonymous_variant","LOW","Rv2191","Rv2191",1116,"p.Ala372Ala"]
[2459234,"G","C","ANN=C","missense_variant","MODERATE","qcrA","Rv2195",843,"p.Met281Ile"]
[2461545,"C","A","ANN=A","missense_variant","MODERATE","Rv2197c","Rv2197c",604,"p.Ala202Ser"]
[2462871,"G","A","ANN=A","synonymous_variant","LOW","mmpS3","Rv2198c",177,"p.Ala59Ala"]
[2468521,"C","T","ANN=T","synonymous_variant","LOW","Rv2203","Rv2203",291,"p.Val97Val"]
[2470197,"A","G","ANN=G","synonymous_variant","LOW","Rv2205c","Rv2205c",267,"p.Cys89Cys"]
[2470591,"A","C","ANN=C","upstream_gene_variant","MODIFIER","adoK","Rv2202c",-2564]
[2472956,"T","C","ANN=C","missense_variant","MODERATE","cobS","Rv2208",464,"p.Leu155Ser"]
[2475116,"G","A","ANN=A","synonymous_variant","LOW","ilvE","Rv2210c",855,"p.Phe285Phe"]
[2475888,"T","G","ANN=G","missense_variant","MODERATE","ilvE","Rv2210c",83,"p.Glu28Ala"]
[2478967,"C","G","ANN=G","missense_variant","MODERATE","pepB","Rv2213",630,"p.Phe210Leu"]
[2484801,"A","G","ANN=G","missense_variant","MODERATE","lipB","Rv2217",218,"p.Asp73Gly"]
[2486454,"T","C","ANN=C","missense_variant","MODERATE","Rv2219","Rv2219",220,"p.Phe74Leu"]
[2489316,"A","G","ANN=G","upstream_gene_variant","MODIFIER","Rv2219A","Rv2219A",-1900]
[2495500,"T","C","ANN=C","synonymous_variant","LOW","caeA","Rv2224c",1524,"p.Leu508Leu"]
[2498923,"G","A","ANN=A","missense_variant","MODERATE","Rv2226","Rv2226",92,"p.Gly31Asp"]
[2499726,"G","A","ANN=A","missense_variant","MODERATE","Rv2226","Rv2226",895,"p.Asp299Asn"]
[2501148,"T","C","ANN=C","missense_variant","MODERATE","Rv2227","Rv2227",218,"p.Val73Ala"]
[2501504,"T","C","ANN=C","missense_variant","MODERATE","Rv2227","Rv2227",574,"p.Phe192Leu"]
[2502757,"C","T","ANN=T","missense_variant","MODERATE","Rv2229c","Rv2229c",716,"p.Arg239Gln"]
[2509140,"G","C","ANN=C","missense_variant","MODERATE","cobD","Rv2236c",236,"p.Ser79Cys"]
[2509362,"G","A","ANN=A","missense_variant","MODERATE","cobD","Rv2236c",14,"p.Thr5Ile"]
[2509644,"G","A","ANN=A","synonymous_variant","LOW","Rv2237","Rv2237",156,"p.Gly52Gly"]
[2509722,"A","G","ANN=G","synonymous_variant","LOW","Rv2237","Rv2237",234,"p.Pro78Pro"]
[2511712,"G","T","ANN=T","missense_variant","MODERATE","Rv2240c","Rv2240c",569,"p.Thr190Lys"]
[2515639,"G","T","ANN=T","synonymous_variant","LOW","Rv2242","Rv2242",336,"p.Val112Val"]
[2516567,"G","C","ANN=C","upstream_gene_variant","MODIFIER","Rv2239c","Rv2239c",-4915]
[2518132,"C","T","ANN=T","synonymous_variant","LOW","kasA","Rv2245",18,"p.Thr6Thr"]
[2521342,"T","C","ANN=C","synonymous_variant","LOW","accD6","Rv2247",600,"p.Asp200Asp"]
[2522284,"G","A","ANN=A","upstream_gene_variant","MODIFIER","Rv2248","Rv2248",-76]
[2526974,"T","C","ANN=C","synonymous_variant","LOW","Rv2251","Rv2251",1410,"p.Pro470Pro"]
[2528773,"G","A","ANN=A","missense_variant","MODERATE","Rv2254c","Rv2254c",203,"p.Ala68Val"]
[2529299,"G","A","ANN=A","upstream_gene_variant","MODIFIER","glpD1","Rv2249c",-4508]
[2529680,"A","G","ANN=G","synonymous_variant","LOW","Rv2256c","Rv2256c",195,"p.Thr65Thr"]
[2529798,"G","C","ANN=C","missense_variant","MODERATE","Rv2256c","Rv2256c",77,"p.Ala26Gly"]
[2531742,"A","G","ANN=G","synonymous_variant","LOW","Rv2258c","Rv2258c",156,"p.Ala52Ala"]
[2539620,"G","A","ANN=A","synonymous_variant","LOW","Rv2265","Rv2265",921,"p.Val307Val"]
[2546707,"T","C","ANN=C","missense_variant","MODERATE","mazF8","Rv2274c",99,"p.Ile33Met"]
[2555900,"G","T","ANN=T","upstream_gene_variant","MODIFIER","Rv2282c","Rv2282c",-24]
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[2562783,"T","C","ANN=C","missense_variant","MODERATE","lppO","Rv2290",185,"p.Val62Ala"]
[2563958,"A","C","ANN=C","missense_variant","MODERATE","sseB","Rv2291",785,"p.Glu262Ala"]
[2566768,"A","C","ANN=C","upstream_gene_variant","MODIFIER","Rv2292c","Rv2292c",-2515]
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[2580546,"G","T","ANN=T","missense_variant","MODERATE","Rv2308","Rv2308",128,"p.Gly43Val"]
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[2583201,"G","A","ANN=A","missense_variant","MODERATE","Rv2309A","Rv2309A",157,"p.Glu53Lys"]
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[2589216,"G","C","ANN=C","missense_variant","MODERATE","uspA","Rv2316",379,"p.Val127Leu"]
[2591577,"C","G","ANN=G","missense_variant","MODERATE","uspC","Rv2318",1060,"p.Leu354Val"]
[2595933,"C","T","ANN=T","missense_variant","MODERATE","Rv2323c","Rv2323c",337,"p.Ala113Thr"]
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[2602184,"G","C","ANN=C","synonymous_variant","LOW","narK1","Rv2329c",1278,"p.Ala426Ala"]
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[2605293,"G","T","ANN=T","missense_variant","MODERATE","mez","Rv2332",186,"p.Glu62Asp"]
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[2606813,"G","T","ANN=T","missense_variant","MODERATE","stp","Rv2333c",1509,"p.His503Gln"]
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[2608488,"T","C","ANN=C","upstream_gene_variant","MODIFIER","lppP","Rv2330c",-4266]
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[2612300,"G","T","ANN=T","synonymous_variant","LOW","Rv2337c","Rv2337c",688,"p.Arg230Arg"]
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[2614823,"C","T","ANN=T","missense_variant","MODERATE","mmpL9","Rv2339",131,"p.Ala44Val"]
[2617173,"G","A","ANN=A","stop_gained","HIGH","mmpL9","Rv2339",2481,"p.Trp827*"]
[2619271,"T","C","ANN=C","upstream_gene_variant","MODIFIER","PE_PGRS39","Rv2340c",-363]
[2625924,"T","C","ANN=C","synonymous_variant","LOW","esxO","Rv2346c",249,"p.Ala83Ala"]
[2641840,"A","G","ANN=G","missense_variant","MODERATE","zur","Rv2359",191,"p.His64Arg"]
[2642383,"C","T","ANN=T","missense_variant","MODERATE","Rv2360c","Rv2360c",196,"p.Ala66Thr"]
[2646542,"G","A","ANN=A","synonymous_variant","LOW","era","Rv2364c",132,"p.Ala44Ala"]
[2656225,"A","G","ANN=G","missense_variant","MODERATE","mbtH","Rv2377c",206,"p.Val69Ala"]
[2658676,"G","A","ANN=A","missense_variant","MODERATE","mbtF","Rv2379c",3410,"p.Ala1137Val"]
[2659542,"T","C","ANN=C","synonymous_variant","LOW","mbtF","Rv2379c",2544,"p.Gly848Gly"]
[2660319,"C","G","ANN=G","missense_variant","MODERATE","mbtF","Rv2379c",1767,"p.Glu589Asp"]
[2675050,"C","T","ANN=T","missense_variant","MODERATE","mbtB","Rv2383c",788,"p.Arg263Gln"]
[2680658,"T","G","ANN=G","upstream_gene_variant","MODIFIER","mbtB","Rv2383c",-4821]
[2682593,"C","T","ANN=T","missense_variant","MODERATE","hemN","Rv2388c",550,"p.Ala184Thr"]
[2688726,"T","C","ANN=C","synonymous_variant","LOW","ggtB","Rv2394",717,"p.Ala239Ala"]
[2689193,"G","A","ANN=A","missense_variant","MODERATE","ggtB","Rv2394",1184,"p.Arg395Gln"]
[2691713,"T","C","ANN=C","missense_variant","MODERATE","Rv2395","Rv2395",1642,"p.Ser548Pro"]
[2692875,"G","A","ANN=A","missense_variant","MODERATE","PE_PGRS41","Rv2396",77,"p.Ser26Asn"]
[2693089,"T","C","ANN=C","synonymous_variant","LOW","PE_PGRS41","Rv2396",291,"p.Pro97Pro"]
[2695378,"C","G","ANN=G","missense_variant","MODERATE","cysW","Rv2398c",422,"p.Gly141Ala"]
[2700912,"C","G","ANN=G","missense_variant","MODERATE","lppR","Rv2403c",379,"p.Val127Leu"]
[2703018,"G","T","ANN=T","synonymous_variant","LOW","lepA","Rv2404c",231,"p.Gly77Gly"]
[2703829,"C","T","ANN=T","synonymous_variant","LOW","Rv2405","Rv2405",561,"p.Ala187Ala"]
[2709795,"A","G","ANN=G","synonymous_variant","LOW","Rv2411c","Rv2411c",171,"p.Ala57Ala"]
[2712913,"C","A","ANN=A","missense_variant","MODERATE","Rv2415c","Rv2415c",872,"p.Arg291Leu"]
[2713795,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv2411c","Rv2411c",-3830]
[2715125,"T","C","ANN=C","missense_variant","MODERATE","eis","Rv2416c",208,"p.Thr70Ala"]
[2716806,"T","C","ANN=C","synonymous_variant","LOW","Rv2418c","Rv2418c",333,"p.Arg111Arg"]
[2717306,"G","A","ANN=A","missense_variant","MODERATE","gpgP","Rv2419c",494,"p.Ala165Val"]
[2718271,"C","T","ANN=T","missense_variant","MODERATE","nadD","Rv2421c",538,"p.Gly180Ser"]
[2718852,"T","G","ANN=G","upstream_gene_variant","MODIFIER","eis","Rv2416c",-3520]
[2719057,"G","A","ANN=A","upstream_gene_variant","MODIFIER","eis","Rv2416c",-3725]
[2721562,"C","G","ANN=G","synonymous_variant","LOW","Rv2424c","Rv2424c",216,"p.Ala72Ala"]
[2723506,"T","C","ANN=C","synonymous_variant","LOW","Rv2426c","Rv2426c",678,"p.Leu226Leu"]
[2723847,"A","G","ANN=G","missense_variant","MODERATE","Rv2426c","Rv2426c",337,"p.Phe113Leu"]
[2725803,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv2424c","Rv2424c",-4026]
[2737017,"G","A","ANN=A","upstream_gene_variant","MODIFIER","Rv2435c","Rv2435c",-4268]
[2737572,"C","A","ANN=A","missense_variant","MODERATE","proB","Rv2439c",676,"p.Ala226Ser"]
[2740693,"T","C","ANN=C","upstream_gene_variant","MODIFIER","nadE","Rv2438c",-3862]
[2741758,"G","T","ANN=T","synonymous_variant","LOW","dctA","Rv2443",1050,"p.Leu350Leu"]
[2751300,"G","A","ANN=A","synonymous_variant","LOW","Rv2449c","Rv2449c",273,"p.Thr91Thr"]
[2751804,"C","T","ANN=T","missense_variant","MODERATE","rpfE","Rv2450c",377,"p.Arg126Gln"]
[2752448,"A","G","ANN=G","missense_variant","MODERATE","Rv2451","Rv2451",187,"p.Asn63Asp"]
[2752698,"C","A","ANN=A","upstream_gene_variant","MODIFIER","valS","Rv2448c",-2473]
[2753008,"C","T","ANN=T","upstream_gene_variant","MODIFIER","valS","Rv2448c",-2783]
[2760147,"C","T","ANN=T","synonymous_variant","LOW","mmuM","Rv2458",369,"p.Arg123Arg"]
[2760152,"A","G","ANN=G","missense_variant","MODERATE","mmuM","Rv2458",374,"p.Tyr125Cys"]
[2761018,"G","A","ANN=A","missense_variant","MODERATE","Rv2459","Rv2459",165,"p.Met55Ile"]
[2764939,"G","A","ANN=A","missense_variant","MODERATE","tig","Rv2462c",353,"p.Pro118Leu"]
[2767842,"T","C","ANN=C","synonymous_variant","LOW","rpiB","Rv2465c",318,"p.Gln106Gln"]
[2772741,"C","A","ANN=A","missense_variant","MODERATE","Rv2469c","Rv2469c",295,"p.Ala99Ser"]
[2772954,"T","C","ANN=C","missense_variant","MODERATE","Rv2469c","Rv2469c",82,"p.Ser28Gly"]
[2774180,"G","C","ANN=C","missense_variant","MODERATE","aglA","Rv2471",617,"p.Trp206Ser"]
[2776881,"G","A","ANN=A","missense_variant","MODERATE","Rv2474c","Rv2474c",89,"p.Ala30Val"]
[2779136,"T","C","ANN=C","missense_variant","MODERATE","gdh","Rv2476c",3127,"p.Ser1043Gly"]
[2782927,"T","C","ANN=C","synonymous_variant","LOW","Rv2477c","Rv2477c",1116,"p.Thr372Thr"]
[2786952,"A","G","ANN=G","missense_variant","MODERATE","plsB2","Rv2482c",2332,"p.Cys778Arg"]
[2790458,"A","C","ANN=C","missense_variant","MODERATE","plsC","Rv2483c",565,"p.Cys189Gly"]
[2791098,"C","T","ANN=T","missense_variant","MODERATE","Rv2484c","Rv2484c",1397,"p.Gly466Asp"]
[2791475,"A","G","ANN=G","synonymous_variant","LOW","Rv2484c","Rv2484c",1020,"p.Ala340Ala"]
[2807486,"C","A","ANN=A","missense_variant","MODERATE","Rv2492","Rv2492",209,"p.Ala70Asp"]
[2809318,"G","A","ANN=A","missense_variant","MODERATE","bkdC","Rv2495c",622,"p.Arg208Trp"]
[2809621,"T","C","ANN=C","missense_variant","MODERATE","bkdC","Rv2495c",319,"p.Thr107Ala"]
[2810382,"C","T","ANN=T","missense_variant","MODERATE","bkdB","Rv2496c",601,"p.Gly201Ser"]
[2812742,"A","G","ANN=G","synonymous_variant","LOW","citE","Rv2498c",435,"p.Gly145Gly"]
[2817446,"G","T","ANN=T","missense_variant","MODERATE","accD1","Rv2502c",1029,"p.Phe343Leu"]
[2818246,"C","T","ANN=T","missense_variant","MODERATE","accD1","Rv2502c",229,"p.Gly77Ser"]
[2818837,"A","G","ANN=G","synonymous_variant","LOW","scoB","Rv2503c",291,"p.Gly97Gly"]
[2821342,"C","T","ANN=T","synonymous_variant","LOW","fadD35","Rv2505c",255,"p.Ala85Ala"]
[2822974,"C","T","ANN=T","synonymous_variant","LOW","Rv2507","Rv2507",537,"p.Pro179Pro"]
[2825466,"G","A","ANN=A","synonymous_variant","LOW","Rv2509","Rv2509",789,"p.Lys263Lys"]
[2827984,"G","T","ANN=T","upstream_gene_variant","MODIFIER","Rv2508c","Rv2508c",-3391]
[2828019,"T","C","ANN=C","upstream_gene_variant","MODIFIER","Rv2508c","Rv2508c",-3426]
[2830525,"C","A","ANN=A","missense_variant","MODERATE","Rv2513","Rv2513",365,"p.Thr122Lys"]
[2831482,"A","G","ANN=G","synonymous_variant","LOW","Rv2515c","Rv2515c",1110,"p.Gly370Gly"]
[2841022,"A","G","ANN=G","missense_variant","MODERATE","fas","Rv2524c",8311,"p.Cys2771Arg"]
[2847281,"A","G","ANN=G","synonymous_variant","LOW","fas","Rv2524c",2052,"p.Asp684Asp"]
[2851291,"G","A","ANN=A","synonymous_variant","LOW","vapB17","Rv2526",201,"p.Val67Val"]
[2853155,"G","A","ANN=A","missense_variant","MODERATE","Rv2529","Rv2529",281,"p.Gly94Glu"]
[2855259,"A","G","ANN=G","synonymous_variant","LOW","Rv2531c","Rv2531c",2523,"p.Ala841Ala"]
[2857635,"G","A","ANN=A","synonymous_variant","LOW","Rv2531c","Rv2531c",147,"p.Asp49Asp"]
[2858669,"G","T","ANN=T","missense_variant","MODERATE","nusB","Rv2533c",56,"p.Ala19Asp"]
[2865760,"A","G","ANN=G","missense_variant","MODERATE","Rv2542","Rv2542",631,"p.Thr211Ala"]
[2865882,"T","C","ANN=C","synonymous_variant","LOW","Rv2542","Rv2542",753,"p.Val251Val"]
[2870386,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv2548A","Rv2548A",-759]
[2875808,"C","G","ANN=G","missense_variant","MODERATE","alaS","Rv2555c",678,"p.Lys226Asn"]
[2878980,"C","T","ANN=T","missense_variant","MODERATE","Rv2559c","Rv2559c",950,"p.Gly317Asp"]
[2880702,"G","C","ANN=C","missense_variant","MODERATE","Rv2560","Rv2560",628,"p.Val210Leu"]
[2881966,"T","C","ANN=C","missense_variant","MODERATE","Rv2562","Rv2562",209,"p.Ile70Thr"]
[2886400,"G","A","ANN=A","missense_variant","MODERATE","Rv2566","Rv2566",28,"p.Gly10Ser"]
[2886570,"A","G","ANN=G","synonymous_variant","LOW","Rv2566","Rv2566",198,"p.Glu66Glu"]
[2887180,"G","T","ANN=T","missense_variant","MODERATE","Rv2566","Rv2566",808,"p.Ala270Ser"]
[2888201,"T","C","ANN=C","missense_variant","MODERATE","Rv2566","Rv2566",1829,"p.Leu610Pro"]
[2889633,"T","C","ANN=C","synonymous_variant","LOW","Rv2566","Rv2566",3261,"p.Ala1087Ala"]
[2890668,"C","T","ANN=T","synonymous_variant","LOW","Rv2567","Rv2567",874,"p.Leu292Leu"]
[2891267,"C","T","ANN=T","synonymous_variant","LOW","Rv2567","Rv2567",1473,"p.Gly491Gly"]
[2891728,"A","G","ANN=G","missense_variant","MODERATE","Rv2567","Rv2567",1934,"p.Gln645Arg"]
[2894208,"G","A","ANN=A","synonymous_variant","LOW","Rv2569c","Rv2569c",201,"p.Ser67Ser"]
[2896260,"G","A","ANN=A","missense_variant","MODERATE","aspS","Rv2572c",1544,"p.Ala515Val"]
[2897842,"G","C","ANN=C","upstream_gene_variant","MODIFIER","Rv2568c","Rv2568c",-4371]
[2897871,"A","G","ANN=G","upstream_gene_variant","MODIFIER","Rv2568c","Rv2568c",-4400]
[2904516,"G","A","ANN=A","missense_variant","MODERATE","dhaA","Rv2579",878,"p.Arg293Gln"]
[2907009,"G","T","ANN=T","missense_variant","MODERATE","ppiB","Rv2582",196,"p.Val66Phe"]
[2910461,"G","T","ANN=T","missense_variant","MODERATE","apt","Rv2584c",440,"p.Ala147Glu"]
[2911293,"C","G","ANN=G","missense_variant","MODERATE","Rv2585c","Rv2585c",1385,"p.Cys462Ser"]
[2912294,"T","G","ANN=G","synonymous_variant","LOW","Rv2585c","Rv2585c",384,"p.Ala128Ala"]
[2912516,"G","A","ANN=A","synonymous_variant","LOW","Rv2585c","Rv2585c",162,"p.Thr54Thr"]
[2912712,"T","G","ANN=G","missense_variant","MODERATE","secF","Rv2586c",1300,"p.Thr434Pro"]
[2913087,"C","T","ANN=T","missense_variant","MODERATE","secF","Rv2586c",925,"p.Ala309Thr"]
[2918796,"T","A","ANN=A","missense_variant","MODERATE","fadD9","Rv2590",926,"p.Phe309Tyr"]
[2919670,"G","A","ANN=A","synonymous_variant","LOW","fadD9","Rv2590",1800,"p.Leu600Leu"]
[2923391,"T","C","ANN=C","synonymous_variant","LOW","ruvB","Rv2592c",843,"p.Pro281Pro"]
[2925962,"T","C","ANN=C","missense_variant","MODERATE","vapC40","Rv2596",229,"p.Cys77Arg"]
[2927291,"G","A","ANN=A","synonymous_variant","LOW","Rv2598","Rv2598",306,"p.Ala102Ala"]
[2927511,"G","T","ANN=T","missense_variant","MODERATE","Rv2599","Rv2599",35,"p.Ser12Ile"]
[2927939,"T","C","ANN=C","upstream_gene_variant","MODIFIER","ruvB","Rv2592c",-3706]
[2932890,"A","G","ANN=G","missense_variant","MODERATE","tesB2","Rv2605c",253,"p.Phe85Leu"]
[2935886,"C","T","ANN=T","missense_variant","MODERATE","PPE42","Rv2608",841,"p.Pro281Ser"]
[2939373,"G","C","ANN=C","missense_variant","MODERATE","Rv2611c","Rv2611c",590,"p.Ser197Cys"]
[2939657,"T","C","ANN=C","missense_variant","MODERATE","Rv2611c","Rv2611c",306,"p.Ile102Met"]
[2943545,"G","A","ANN=A","missense_variant","MODERATE","Rv2614A","Rv2614A",170,"p.Arg57His"]
[2945205,"C","T","ANN=T","upstream_gene_variant","MODIFIER","pgsA1","Rv2612c",-4593]
[2945543,"G","A","ANN=A","missense_variant","MODERATE","Rv2616","Rv2616",214,"p.Val72Ile"]
[2959324,"A","G","ANN=G","upstream_gene_variant","MODIFIER","Rv2627c","Rv2627c",-4576]
[2968273,"T","C","ANN=C","missense_variant","MODERATE","arsC","Rv2643",1364,"p.Val455Ala"]
[2968468,"G","C","ANN=C","upstream_gene_variant","MODIFIER","Rv2639c","Rv2639c",-3110]
[2984740,"A","G","ANN=G","missense_variant","MODERATE","Rv2668","Rv2668",8,"p.His3Arg"]
[2984932,"G","C","ANN=C","missense_variant","MODERATE","Rv2668","Rv2668",200,"p.Gly67Ala"]
[2985216,"G","A","ANN=A","missense_variant","MODERATE","Rv2668","Rv2668",484,"p.Glu162Lys"]
[2988630,"C","G","ANN=G","missense_variant","MODERATE","Rv2672","Rv2672",949,"p.His317Asp"]
[2991694,"C","G","ANN=G","synonymous_variant","LOW","Rv2675c","Rv2675c",243,"p.Ser81Ser"]
[2994187,"T","C","ANN=C","synonymous_variant","LOW","hemE","Rv2678c",876,"p.Leu292Leu"]
[2997325,"C","T","ANN=T","missense_variant","MODERATE","Rv2681","Rv2681",587,"p.Ala196Val"]
[3000362,"T","C","ANN=C","missense_variant","MODERATE","Rv2683","Rv2683",251,"p.Leu84Ser"]
[3003115,"C","G","ANN=G","missense_variant","MODERATE","arsB1","Rv2685",1133,"p.Ala378Gly"]
[3005185,"G","T","ANN=T","missense_variant","MODERATE","Rv2688c","Rv2688c",466,"p.Pro156Thr"]
[3006898,"G","A","ANN=A","synonymous_variant","LOW","Rv2689c","Rv2689c",165,"p.Tyr55Tyr"]
[3007238,"A","G","ANN=G","stop_lost&splice_region_variant","HIGH","Rv2690c","Rv2690c",1972,"p.Ter658Argext*?"]
[3009692,"A","G","ANN=G","missense_variant","MODERATE","ceoB","Rv2691",349,"p.Thr117Ala"]
[3010420,"A","G","ANN=G","missense_variant","MODERATE","ceoC","Rv2692",397,"p.Ile133Val"]
[3011566,"G","T","ANN=T","missense_variant","MODERATE","Rv2694c","Rv2694c",202,"p.Arg68Ser"]
[3013119,"C","T","ANN=T","missense_variant","MODERATE","Rv2696c","Rv2696c",490,"p.Asp164Asn"]
[3017465,"T","C","ANN=C","missense_variant","MODERATE","ppgK","Rv2702",608,"p.Ile203Thr"]
[3021942,"C","G","ANN=G","missense_variant","MODERATE","Rv2709","Rv2709",104,"p.Thr35Ser"]
[3027606,"C","G","ANN=G","missense_variant","MODERATE","Rv2714","Rv2714",542,"p.Ser181Trp"]
[3027798,"T","C","ANN=C","missense_variant","MODERATE","Rv2714","Rv2714",734,"p.Val245Ala"]
[3027955,"G","A","ANN=A","synonymous_variant","LOW","Rv2714","Rv2714",891,"p.Leu297Leu"]
[3031168,"A","G","ANN=G","missense_variant","MODERATE","Rv2719c","Rv2719c",370,"p.Tyr124His"]
[3032137,"T","C","ANN=C","missense_variant","MODERATE","lexA","Rv2720",350,"p.Val117Ala"]
[3036912,"A","G","ANN=G","missense_variant","MODERATE","fadE20","Rv2724c",380,"p.Ile127Thr"]
[3037195,"G","C","ANN=C","missense_variant","MODERATE","fadE20","Rv2724c",97,"p.Pro33Ala"]
[3037377,"T","C","ANN=C","upstream_gene_variant","MODIFIER","Rv2721c","Rv2721c",-2758]
[3041557,"T","C","ANN=C","upstream_gene_variant","MODIFIER","fadE20","Rv2724c",-4266]
[3041679,"G","A","ANN=A","missense_variant","MODERATE","Rv2729c","Rv2729c",797,"p.Ala266Val"]
[3041871,"G","T","ANN=T","missense_variant","MODERATE","Rv2729c","Rv2729c",605,"p.Ala202Glu"]
[3042353,"G","C","ANN=C","missense_variant","MODERATE","Rv2729c","Rv2729c",123,"p.Phe41Leu"]
[3044864,"C","T","ANN=T","synonymous_variant","LOW","Rv2732c","Rv2732c",126,"p.Val42Val"]
[3054081,"A","G","ANN=G","synonymous_variant","LOW","PE_PGRS47","Rv2741",168,"p.Gly56Gly"]
[3054321,"A","G","ANN=G","synonymous_variant","LOW","PE_PGRS47","Rv2741",408,"p.Gly136Gly"]
[3055922,"A","G","ANN=G","synonymous_variant","LOW","Rv2742c","Rv2742c",427,"p.Leu143Leu"]
[3059270,"A","G","ANN=G","synonymous_variant","LOW","argA","Rv2747",9,"p.Glu3Glu"]
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[3072927,"G","A","ANN=A","stop_gained","HIGH","Rv2762c","Rv2762c",130,"p.Gln44*"]
[3077291,"G","C","ANN=C","missense_variant","MODERATE","PPE43","Rv2768c",788,"p.Pro263Arg"]
[3078178,"C","T","ANN=T","missense_variant","MODERATE","PE27","Rv2769c",808,"p.Val270Met"]
[3078826,"G","A","ANN=A","missense_variant","MODERATE","PE27","Rv2769c",160,"p.Pro54Ser"]
[3079877,"A","G","ANN=G","missense_variant","MODERATE","PPE44","Rv2770c",581,"p.Phe194Ser"]
[3080795,"A","G","ANN=G","missense_variant","MODERATE","Rv2771c","Rv2771c",239,"p.Leu80Pro"]
[3081731,"G","A","ANN=A","missense_variant","MODERATE","dapB","Rv2773c",611,"p.Thr204Ile"]
[3081928,"G","A","ANN=A","synonymous_variant","LOW","dapB","Rv2773c",414,"p.Asp138Asp"]
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[3088625,"A","G","ANN=G","synonymous_variant","LOW","Rv2781c","Rv2781c",360,"p.Val120Val"]
[3097368,"A","C","ANN=C","missense_variant","MODERATE","sirR","Rv2788",410,"p.Asp137Ala"]
[3098939,"G","C","ANN=C","upstream_gene_variant","MODIFIER","ribF","Rv2786c",-4039]
[3101925,"T","C","ANN=C","missense_variant","MODERATE","Rv2792c","Rv2792c",238,"p.Thr80Ala"]
[3103682,"T","C","ANN=C","missense_variant","MODERATE","pptT","Rv2794c",259,"p.Met87Val"]
[3104189,"A","G","ANN=G","synonymous_variant","LOW","Rv2795c","Rv2795c",723,"p.Cys241Cys"]
[3105144,"C","A","ANN=A","missense_variant","MODERATE","lppV","Rv2796c",476,"p.Cys159Phe"]
[3112877,"G","A","ANN=A","missense_variant","MODERATE","Rv2804c","Rv2804c",218,"p.Ala73Val"]
[3112923,"C","T","ANN=T","missense_variant","MODERATE","Rv2804c","Rv2804c",172,"p.Ala58Thr"]
[3113872,"A","T","ANN=T","missense_variant","MODERATE","Rv2807","Rv2807",215,"p.Glu72Val"]
[3115543,"A","C","ANN=C","missense_variant","MODERATE","Rv2809","Rv2809",136,"p.Thr46Pro"]
[3118000,"A","G","ANN=G","missense_variant","MODERATE","Rv2812","Rv2812",1183,"p.Arg395Gly"]
[3118449,"A","G","ANN=G","missense_variant","MODERATE","Rv2813","Rv2813",226,"p.Ile76Val"]
[3125235,"G","A","ANN=A","stop_gained","HIGH","Rv2818c","Rv2818c",910,"p.Gln304*"]
[3127466,"T","G","ANN=G","synonymous_variant","LOW","Rv2820c","Rv2820c",807,"p.Arg269Arg"]
[3132963,"A","G","ANN=G","synonymous_variant","LOW","Rv2825c","Rv2825c",577,"p.Leu193Leu"]
[3132975,"C","G","ANN=G","missense_variant","MODERATE","Rv2825c","Rv2825c",565,"p.Val189Leu"]
[3133054,"C","G","ANN=G","synonymous_variant","LOW","Rv2825c","Rv2825c",486,"p.Ser162Ser"]
[3133055,"G","C","ANN=C","missense_variant","MODERATE","Rv2825c","Rv2825c",485,"p.Ser162Trp"]
[3133536,"T","C","ANN=C","missense_variant","MODERATE","Rv2825c","Rv2825c",4,"p.Lys2Glu"]
[3134839,"G","A","ANN=A","synonymous_variant","LOW","Rv2827c","Rv2827c",645,"p.Arg215Arg"]
[3137058,"G","A","ANN=A","missense_variant","MODERATE","vapB22","Rv2830c",167,"p.Ala56Val"]
[3137237,"T","C","ANN=C","upstream_gene_variant","MODIFIER","Rv2824c","Rv2824c",-4523]
[3139964,"G","A","ANN=A","missense_variant","MODERATE","ugpB","Rv2833c",521,"p.Pro174Leu"]
[3140153,"C","A","ANN=A","missense_variant","MODERATE","ugpB","Rv2833c",332,"p.Ser111Ile"]
[3142580,"G","A","ANN=A","missense_variant","MODERATE","dinF","Rv2836c",1049,"p.Pro350Leu"]
[3152257,"C","T","ANN=T","missense_variant","MODERATE","proS","Rv2845c",694,"p.Ala232Thr"]
[3152421,"T","C","ANN=C","missense_variant","MODERATE","proS","Rv2845c",530,"p.His177Arg"]
[3154587,"T","C","ANN=C","synonymous_variant","LOW","efpA","Rv2846c",45,"p.Thr15Thr"]
[3154588,"G","C","ANN=C","missense_variant","MODERATE","efpA","Rv2846c",44,"p.Thr15Arg"]
[3157785,"C","G","ANN=G","missense_variant","MODERATE","cobO","Rv2849c",360,"p.Trp120Cys"]
[3158719,"C","T","ANN=T","missense_variant","MODERATE","Rv2850c","Rv2850c",1336,"p.Gly446Ser"]
[3159237,"C","T","ANN=T","missense_variant","MODERATE","Rv2850c","Rv2850c",818,"p.Arg273Gln"]
[3164790,"C","T","ANN=T","synonymous_variant","LOW","Rv2854","Rv2854",639,"p.Asp213Asp"]
[3170493,"C","G","ANN=G","synonymous_variant","LOW","aldC","Rv2858c",231,"p.Pro77Pro"]
[3174496,"A","G","ANN=G","missense_variant","MODERATE","Rv2862c","Rv2862c",148,"p.Cys50Arg"]
[3174591,"C","G","ANN=G","missense_variant","MODERATE","Rv2862c","Rv2862c",53,"p.Arg18Pro"]
[3177884,"C","A","ANN=A","synonymous_variant","LOW","relG","Rv2866",63,"p.Arg21Arg"]
[3180988,"C","A","ANN=A","missense_variant","MODERATE","rip","Rv2869c",775,"p.Val259Phe"]
[3184760,"G","T","ANN=T","upstream_gene_variant","MODIFIER","gcpE","Rv2868c",-4229]
[3186860,"T","G","ANN=G","missense_variant","MODERATE","dipZ","Rv2874",2014,"p.Tyr672Asp"]
[3187792,"T","C","ANN=C","missense_variant","MODERATE","Rv2876","Rv2876",130,"p.Trp44Arg"]
[3188769,"A","G","ANN=G","missense_variant","MODERATE","Rv2877c","Rv2877c",103,"p.Tyr35His"]
[3189242,"A","G","ANN=G","synonymous_variant","LOW","mpt53","Rv2878c",156,"p.Ala52Ala"]
[3189664,"T","C","ANN=C","synonymous_variant","LOW","Rv2879c","Rv2879c",489,"p.Lys163Lys"]
[3194392,"T","A","ANN=A","missense_variant","MODERATE","Rv2885c","Rv2885c",1157,"p.Lys386Ile"]
[3195731,"T","C","ANN=C","synonymous_variant","LOW","Rv2886c","Rv2886c",702,"p.Val234Val"]
[3198332,"G","A","ANN=A","missense_variant","MODERATE","tsf","Rv2889c",776,"p.Thr259Met"]
[3200304,"A","G","ANN=G","synonymous_variant","LOW","Rv2891","Rv2891",39,"p.Val13Val"]
[3206265,"T","C","ANN=C","missense_variant","MODERATE","Rv2896c","Rv2896c",170,"p.Glu57Gly"]
[3207250,"A","T","ANN=T","synonymous_variant","LOW","Rv2897c","Rv2897c",693,"p.Leu231Leu"]
[3213089,"C","T","ANN=T","missense_variant","MODERATE","lepB","Rv2903c",766,"p.Asp256Asn"]
[3223303,"C","T","ANN=T","synonymous_variant","LOW","pknI","Rv2914c",222,"p.Glu74Glu"]
[3226181,"A","C","ANN=C","synonymous_variant","LOW","ffh","Rv2916c",105,"p.Arg35Arg"]
[3228143,"G","T","ANN=T","missense_variant","MODERATE","Rv2917","Rv2917",1781,"p.Arg594Leu"]
[3229201,"G","A","ANN=A","missense_variant","MODERATE","glnD","Rv2918c",1480,"p.Arg494Trp"]
[3230013,"A","C","ANN=C","missense_variant","MODERATE","glnD","Rv2918c",668,"p.Leu223Arg"]
[3235715,"G","C","ANN=C","missense_variant","MODERATE","smc","Rv2922c",2092,"p.Arg698Gly"]
[3236716,"A","C","ANN=C","missense_variant","MODERATE","smc","Rv2922c",1091,"p.Leu364Arg"]
[3243355,"T","C","ANN=C","upstream_gene_variant","MODIFIER","Rv2923c","Rv2923c",-4856]
[3244414,"A","G","ANN=G","missense_variant","MODERATE","fadD26","Rv2930",718,"p.Met240Val"]
[3246547,"A","C","ANN=C","missense_variant","MODERATE","ppsA","Rv2931",1103,"p.Asn368Thr"]
[3247316,"C","G","ANN=G","missense_variant","MODERATE","ppsA","Rv2931",1872,"p.Asp624Glu"]
[3247579,"G","A","ANN=A","missense_variant","MODERATE","ppsA","Rv2931",2135,"p.Arg712Gln"]
[3247851,"G","A","ANN=A","missense_variant","MODERATE","ppsA","Rv2931",2407,"p.Ala803Thr"]
[3247856,"G","C","ANN=C","synonymous_variant","LOW","ppsA","Rv2931",2412,"p.Arg804Arg"]
[3247874,"G","A","ANN=A","synonymous_variant","LOW","ppsA","Rv2931",2430,"p.Arg810Arg"]
[3247883,"T","C","ANN=C","synonymous_variant","LOW","ppsA","Rv2931",2439,"p.Ser813Ser"]
[3248074,"G","A","ANN=A","missense_variant","MODERATE","ppsA","Rv2931",2630,"p.Arg877His"]
[3248075,"C","T","ANN=T","synonymous_variant","LOW","ppsA","Rv2931",2631,"p.Arg877Arg"]
[3254695,"C","T","ANN=T","synonymous_variant","LOW","ppsB","Rv2932",3624,"p.Ala1208Ala"]
[3254880,"G","T","ANN=T","missense_variant","MODERATE","ppsB","Rv2932",3809,"p.Arg1270Leu"]
[3256494,"A","G","ANN=G","synonymous_variant","LOW","ppsC","Rv2933",810,"p.Gly270Gly"]
[3261006,"C","A","ANN=A","synonymous_variant","LOW","ppsC","Rv2933",5322,"p.Gly1774Gly"]
[3262628,"G","A","ANN=A","missense_variant","MODERATE","ppsD","Rv2934",381,"p.Met127Ile"]
[3267715,"A","C","ANN=C","missense_variant","MODERATE","ppsD","Rv2934",5468,"p.Glu1823Ala"]
[3269581,"A","G","ANN=G","synonymous_variant","LOW","ppsE","Rv2935",1845,"p.Ala615Ala"]
[3270784,"A","G","ANN=G","synonymous_variant","LOW","ppsE","Rv2935",3048,"p.Gln1016Gln"]
[3271037,"A","G","ANN=G","missense_variant","MODERATE","ppsE","Rv2935",3301,"p.Asn1101Asp"]
[3273138,"C","G","ANN=G","missense_variant","MODERATE","drrA","Rv2936",925,"p.His309Asp"]
[3273859,"C","T","ANN=T","synonymous_variant","LOW","drrB","Rv2937",654,"p.Leu218Leu"]
[3282079,"T","A","ANN=A","missense_variant","MODERATE","mas","Rv2940c",637,"p.Ser213Cys"]
[3283339,"G","T","ANN=T","missense_variant","MODERATE","fadD28","Rv2941",5,"p.Ser2Ile"]
[3283492,"A","G","ANN=G","missense_variant","MODERATE","fadD28","Rv2941",158,"p.Gln53Arg"]
[3283592,"G","C","ANN=C","synonymous_variant","LOW","fadD28","Rv2941",258,"p.Gly86Gly"]
[3286107,"C","A","ANN=A","synonymous_variant","LOW","mmpL7","Rv2942",1038,"p.Val346Val"]
[3292275,"G","A","ANN=A","missense_variant","MODERATE","pks1","Rv2946c",4079,"p.Ala1360Val"]
[3292506,"A","C","ANN=C","missense_variant","MODERATE","pks1","Rv2946c",3848,"p.Val1283Gly"]
[3293483,"G","A","ANN=A","synonymous_variant","LOW","pks1","Rv2946c",2871,"p.Ala957Ala"]
[3296721,"C","G","ANN=G","missense_variant","MODERATE","pks15","Rv2947c",1120,"p.Gly374Arg"]
[3296843,"A","G","ANN=G","missense_variant","MODERATE","pks15","Rv2947c",998,"p.Val333Ala"]
[3301252,"C","T","ANN=T","missense_variant","MODERATE","fadD29","Rv2950c",1204,"p.Ala402Thr"]
[3302683,"C","T","ANN=T","upstream_gene_variant","MODIFIER","pks15","Rv2947c",-4843]
[3308466,"C","T","ANN=T","missense_variant","MODERATE","Rv2955c","Rv2955c",80,"p.Arg27His"]
[3308606,"G","A","ANN=A","upstream_gene_variant","MODIFIER","Rv2951c","Rv2951c",-4358]
[3309377,"T","C","ANN=C","missense_variant","MODERATE","Rv2956","Rv2956",710,"p.Ile237Thr"]
[3310875,"G","A","ANN=A","stop_gained","HIGH","Rv2958c","Rv2958c",1126,"p.Arg376*"]
[3311119,"G","C","ANN=C","synonymous_variant","LOW","Rv2958c","Rv2958c",882,"p.Val294Val"]
[3312728,"C","T","ANN=T","synonymous_variant","LOW","Rv2959c","Rv2959c",111,"p.Val37Val"]
[3314412,"A","G","ANN=G","synonymous_variant","LOW","Rv2962c","Rv2962c",711,"p.Ala237Ala"]
[3320554,"G","A","ANN=A","synonymous_variant","LOW","pca","Rv2967c",2493,"p.Ser831Ser"]
[3326554,"A","C","ANN=C","missense_variant","MODERATE","Rv2971","Rv2971",454,"p.Asn152His"]
[3335297,"T","C","ANN=C","missense_variant","MODERATE","Rv2979c","Rv2979c",452,"p.Asp151Gly"]
[3335514,"T","C","ANN=C","missense_variant","MODERATE","Rv2979c","Rv2979c",235,"p.Thr79Ala"]
[3335708,"G","C","ANN=C","missense_variant","MODERATE","Rv2979c","Rv2979c",41,"p.Pro14Arg"]
[3338603,"G","C","ANN=C","missense_variant","MODERATE","gpdA2","Rv2982c",397,"p.Pro133Ala"]
[3345047,"G","T","ANN=T","missense_variant","MODERATE","leuC","Rv2988c",1029,"p.Asp343Glu"]
[3347070,"G","T","ANN=T","missense_variant","MODERATE","Rv2990c","Rv2990c",650,"p.Ala217Glu"]
[3348258,"G","A","ANN=A","missense_variant","MODERATE","Rv2991","Rv2991",277,"p.Ala93Thr"]
[3352919,"A","G","ANN=G","missense_variant","MODERATE","leuB","Rv2995c",550,"p.Phe184Leu"]
[3352932,"C","G","ANN=G","synonymous_variant","LOW","leuB","Rv2995c",537,"p.Thr179Thr"]
[3355417,"T","A","ANN=A","missense_variant","MODERATE","Rv2997","Rv2997",319,"p.Cys107Ser"]
[3356517,"T","C","ANN=C","synonymous_variant","LOW","Rv2997","Rv2997",1419,"p.Pro473Pro"]
[3358235,"A","T","ANN=T","missense_variant","MODERATE","lppY","Rv2999",634,"p.Met212Leu"]
[3363338,"A","G","ANN=G","upstream_gene_variant","MODIFIER","ilvC","Rv3001c",-2752]
[3365364,"G","A","ANN=A","missense_variant","MODERATE","lppZ","Rv3006",656,"p.Gly219Asp"]
[3367765,"G","A","ANN=A","synonymous_variant","LOW","gatB","Rv3009c",1029,"p.Gly343Gly"]
[3369869,"G","T","ANN=T","upstream_gene_variant","MODIFIER","Rv3007c","Rv3007c",-3419]
[3371260,"T","C","ANN=C","missense_variant","MODERATE","gatA","Rv3011c",175,"p.Ile59Val"]
[3371365,"C","T","ANN=T","missense_variant","MODERATE","gatA","Rv3011c",70,"p.Ala24Thr"]
[3371401,"G","A","ANN=A","synonymous_variant","LOW","gatA","Rv3011c",34,"p.Leu12Leu"]
[3378095,"A","G","ANN=G","missense_variant","MODERATE","PPE46","Rv3018c",149,"p.Val50Ala"]
[3382598,"C","T","ANN=T","missense_variant","MODERATE","Rv3023c","Rv3023c",25,"p.Ala9Thr"]
[3386903,"A","G","ANN=G","missense_variant","MODERATE","Rv3027c","Rv3027c",17,"p.Val6Ala"]
[3387097,"G","A","ANN=A","missense_variant","MODERATE","fixB","Rv3028c",935,"p.Ala312Val"]
[3388682,"T","C","ANN=C","synonymous_variant","LOW","fixA","Rv3029c",189,"p.Val63Val"]
[3396954,"T","C","ANN=C","missense_variant","MODERATE","TB22.2","Rv3036c",188,"p.Gln63Arg"]
[3398271,"T","G","ANN=G","missense_variant","MODERATE","Rv3037c","Rv3037c",20,"p.Asp7Ala"]
[3401871,"A","G","ANN=G","synonymous_variant","LOW","Rv3041c","Rv3041c",48,"p.Ala16Ala"]
[3402816,"C","T","ANN=T","missense_variant","MODERATE","serB2","Rv3042c",347,"p.Gly116Glu"]
[3402955,"C","A","ANN=A","missense_variant","MODERATE","serB2","Rv3042c",208,"p.Ala70Ser"]
[3404376,"C","G","ANN=G","synonymous_variant","LOW","ctaD","Rv3043c",546,"p.Thr182Thr"]
[3406257,"G","A","ANN=A","upstream_gene_variant","MODIFIER","Rv3041c","Rv3041c",-4339]
[3415332,"A","G","ANN=G","upstream_gene_variant","MODIFIER","Rv3049c","Rv3049c",-4249]
[3420442,"C","T","ANN=T","synonymous_variant","LOW","cyp136","Rv3059",951,"p.Tyr317Tyr"]
[3420825,"A","G","ANN=G","missense_variant","MODERATE","cyp136","Rv3059",1334,"p.Asp445Gly"]
[3425854,"C","T","ANN=T","missense_variant","MODERATE","ligB","Rv3062",271,"p.Pro91Ser"]
[3428446,"G","T","ANN=T","missense_variant","MODERATE","cstA","Rv3063",1204,"p.Gly402Cys"]
[3428917,"C","A","ANN=A","missense_variant","MODERATE","cstA","Rv3063",1675,"p.Arg559Ser"]
[3429041,"T","C","ANN=C","missense_variant","MODERATE","cstA","Rv3063",1799,"p.Leu600Pro"]
[3429605,"G","A","ANN=A","upstream_gene_variant","MODIFIER","fadE22","Rv3061c",-4178]
[3438386,"G","A","ANN=A","synonymous_variant","LOW","Rv3075c","Rv3075c",588,"p.Ile196Ile"]
[3440464,"T","G","ANN=G","synonymous_variant","LOW","Rv3077","Rv3077",924,"p.Arg308Arg"]
[3440468,"G","C","ANN=C","missense_variant","MODERATE","Rv3077","Rv3077",928,"p.Gly310Arg"]
[3440542,"A","G","ANN=G","synonymous_variant","LOW","Rv3077","Rv3077",1002,"p.Gly334Gly"]
[3444566,"G","A","ANN=A","synonymous_variant","LOW","pknK","Rv3080c",1423,"p.Leu475Leu"]
[3445339,"G","A","ANN=A","missense_variant","MODERATE","pknK","Rv3080c",650,"p.Ala217Val"]
[3447463,"G","A","ANN=A","missense_variant","MODERATE","virS","Rv3082c",964,"p.Arg322Cys"]
[3448783,"G","A","ANN=A","missense_variant","MODERATE","Rv3083","Rv3083",280,"p.Val94Ile"]
[3450725,"T","C","ANN=C","synonymous_variant","LOW","lipR","Rv3084",729,"p.Val243Val"]
[3454263,"C","G","ANN=G","missense_variant","MODERATE","Rv3087","Rv3087",1339,"p.Leu447Val"]
[3455686,"G","C","ANN=C","synonymous_variant","LOW","tgs4","Rv3088",1347,"p.Leu449Leu"]
[3456666,"A","G","ANN=G","synonymous_variant","LOW","fadD13","Rv3089",906,"p.Ala302Ala"]
[3457514,"G","C","ANN=C","upstream_gene_variant","MODIFIER","Rv3090","Rv3090",-697]
[3462135,"G","C","ANN=C","missense_variant","MODERATE","Rv3093c","Rv3093c",630,"p.Cys210Trp"]
[3464629,"A","G","ANN=G","missense_variant","MODERATE","Rv3096","Rv3096",83,"p.Glu28Gly"]
[3466919,"C","G","ANN=G","missense_variant","MODERATE","lipY","Rv3097c",173,"p.Gly58Ala"]
[3467315,"G","C","ANN=C","missense_variant","MODERATE","Rv3098c","Rv3098c",348,"p.Asp116Glu"]
[3467465,"C","G","ANN=G","synonymous_variant","LOW","Rv3098c","Rv3098c",198,"p.Ala66Ala"]
[3470168,"T","C","ANN=C","missense_variant","MODERATE","ftsX","Rv3101c",512,"p.Asn171Ser"]
[3474427,"G","A","ANN=A","missense_variant","MODERATE","fprA","Rv3106",421,"p.Val141Ile"]
[3475159,"A","G","ANN=G","missense_variant","MODERATE","fprA","Rv3106",1153,"p.Asn385Asp"]
[3477489,"A","G","ANN=G","missense_variant","MODERATE","Rv3108","Rv3108",430,"p.Ile144Val"]
[3477603,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv3104c","Rv3104c",-4825]
[3479798,"G","A","ANN=A","synonymous_variant","LOW","moaD1","Rv3112",99,"p.Gly33Gly"]
[3480106,"G","C","ANN=C","missense_variant","MODERATE","Rv3113","Rv3113",33,"p.Trp11Cys"]
[3480474,"G","A","ANN=A","missense_variant","MODERATE","Rv3113","Rv3113",401,"p.Gly134Glu"]
[3480645,"T","G","ANN=G","missense_variant","MODERATE","Rv3113","Rv3113",572,"p.Leu191Arg"]
[3480789,"T","C","ANN=C","missense_variant","MODERATE","Rv3114","Rv3114",31,"p.Ser11Pro"]
[3488556,"G","T","ANN=T","missense_variant","MODERATE","Rv3122","Rv3122",468,"p.Arg156Ser"]
[3488687,"G","A","ANN=A","missense_variant","MODERATE","Rv3123","Rv3123",119,"p.Arg40Gln"]
[3489340,"C","G","ANN=G","upstream_gene_variant","MODIFIER","moaR1","Rv3124",-166]
[3491539,"G","A","ANN=A","missense_variant","MODERATE","PPE49","Rv3125c",113,"p.Ala38Val"]
[3492430,"T","G","ANN=G","missense_variant","MODERATE","Rv3127","Rv3127",284,"p.Phe95Cys"]
[3498418,"A","G","ANN=G","missense_variant","MODERATE","devS","Rv3132c",848,"p.Ile283Thr"]
[3503895,"C","T","ANN=T","missense_variant","MODERATE","Rv3137","Rv3137",503,"p.Pro168Leu"]
[3504523,"G","A","ANN=A","missense_variant","MODERATE","pflA","Rv3138",329,"p.Ser110Asn"]
[3505005,"A","C","ANN=C","missense_variant","MODERATE","pflA","Rv3138",811,"p.Thr271Pro"]
[3509091,"G","C","ANN=C","upstream_gene_variant","MODIFIER","Rv3143","Rv3143",-563]
[3510120,"T","G","ANN=G","missense_variant","MODERATE","PPE52","Rv3144c",1198,"p.Lys400Gln"]
[3511587,"T","G","ANN=G","upstream_gene_variant","MODIFIER","Rv3142c","Rv3142c",-2041]
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[3513724,"C","T","ANN=T","synonymous_variant","LOW","nuoD","Rv3148",387,"p.Asn129Asn"]
[3515025,"C","T","ANN=T","synonymous_variant","LOW","nuoE","Rv3149",369,"p.Gly123Gly"]
[3517567,"C","T","ANN=T","synonymous_variant","LOW","nuoG","Rv3151",822,"p.Asn274Asn"]
[3518167,"A","G","ANN=G","missense_variant","MODERATE","nuoG","Rv3151",1422,"p.Ile474Met"]
[3518555,"A","G","ANN=G","missense_variant","MODERATE","nuoG","Rv3151",1810,"p.Thr604Ala"]
[3521044,"A","G","ANN=G","missense_variant","MODERATE","nuoI","Rv3153",538,"p.Thr180Ala"]
[3525557,"G","A","ANN=A","missense_variant","MODERATE","nuoM","Rv3157",1426,"p.Val476Ile"]
[3528552,"G","T","ANN=T","missense_variant","MODERATE","PPE53","Rv3159c",612,"p.Asp204Glu"]
[3530955,"C","G","ANN=G","missense_variant","MODERATE","Rv3161c","Rv3161c",184,"p.Val62Leu"]
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[3540144,"G","A","ANN=A","missense_variant","MODERATE","hpx","Rv3171c",602,"p.Thr201Met"]
[3542163,"T","C","ANN=C","missense_variant","MODERATE","Rv3174","Rv3174",26,"p.Val9Ala"]
[3542764,"G","C","ANN=C","synonymous_variant","LOW","Rv3174","Rv3174",627,"p.Leu209Leu"]
[3555699,"A","G","ANN=G","missense_variant","MODERATE","Rv3190c","Rv3190c",989,"p.Val330Ala"]
[3556275,"A","G","ANN=G","missense_variant","MODERATE","Rv3190c","Rv3190c",413,"p.Leu138Pro"]
[3560645,"C","T","ANN=T","missense_variant","MODERATE","Rv3193c","Rv3193c",2528,"p.Arg843Gln"]
[3565449,"G","A","ANN=A","synonymous_variant","LOW","Rv3195","Rv3195",1086,"p.Glu362Glu"]
[3568004,"C","A","ANN=A","synonymous_variant","LOW","Rv3197","Rv3197",981,"p.Arg327Arg"]
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[3573636,"T","C","ANN=C","missense_variant","MODERATE","Rv3200c","Rv3200c",34,"p.Asn12Asp"]
[3577958,"A","G","ANN=G","missense_variant","MODERATE","Rv3202c","Rv3202c",2243,"p.Val748Ala"]
[3581414,"A","G","ANN=G","missense_variant","MODERATE","Rv3204","Rv3204",100,"p.Thr34Ala"]
[3584190,"C","T","ANN=T","missense_variant","MODERATE","Rv3207c","Rv3207c",469,"p.Asp157Asn"]
[3590142,"T","C","ANN=C","missense_variant","MODERATE","Rv3212","Rv3212",749,"p.Val250Ala"]
[3591063,"T","C","ANN=C","missense_variant","MODERATE","Rv3213c","Rv3213c",430,"p.Lys144Glu"]
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[3595427,"G","A","ANN=A","synonymous_variant","LOW","Rv3218","Rv3218",960,"p.Arg320Arg"]
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[3601528,"C","T","ANN=T","missense_variant","MODERATE","Rv3225c","Rv3225c",913,"p.Ala305Thr"]
[3603825,"G","A","ANN=A","missense_variant","MODERATE","aroA","Rv3227",449,"p.Arg150His"]
[3604821,"G","C","ANN=C","synonymous_variant","LOW","Rv3228","Rv3228",96,"p.Ala32Ala"]
[3606627,"G","A","ANN=A","synonymous_variant","LOW","desA3","Rv3229c",408,"p.Leu136Leu"]
[3607942,"G","A","ANN=A","missense_variant","MODERATE","Rv3230c","Rv3230c",313,"p.Arg105Cys"]
[3611488,"G","C","ANN=C","synonymous_variant","LOW","Rv3235","Rv3235",189,"p.Gly63Gly"]
[3614982,"T","C","ANN=C","synonymous_variant","LOW","Rv3239c","Rv3239c",2622,"p.Leu874Leu"]
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[3624486,"T","C","ANN=C","missense_variant","MODERATE","lpqB","Rv3244c",425,"p.Asp142Gly"]
[3624593,"C","T","ANN=T","synonymous_variant","LOW","lpqB","Rv3244c",318,"p.Val106Val"]
[3624710,"C","T","ANN=T","synonymous_variant","LOW","lpqB","Rv3244c",201,"p.Leu67Leu"]
[3625065,"T","G","ANN=G","missense_variant","MODERATE","mtrB","Rv3245c",1549,"p.Met517Leu"]
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[3638093,"G","A","ANN=A","missense_variant","MODERATE","pmmA","Rv3257c",617,"p.Ser206Leu"]
[3647041,"A","G","ANN=G","missense_variant","MODERATE","rmlD","Rv3266c",769,"p.Ser257Pro"]
[3654487,"A","G","ANN=G","missense_variant","MODERATE","Rv3272","Rv3272",1040,"p.Asn347Ser"]
[3655353,"C","T","ANN=T","synonymous_variant","LOW","Rv3273","Rv3273",717,"p.Phe239Phe"]
[3658266,"C","G","ANN=G","missense_variant","MODERATE","purE","Rv3275c",373,"p.Gly125Arg"]
[3660692,"C","T","ANN=T","missense_variant","MODERATE","Rv3277","Rv3277",815,"p.Ser272Leu"]
[3661382,"C","T","ANN=T","missense_variant","MODERATE","birA","Rv3279c",631,"p.Asp211Asn"]
[3663404,"T","C","ANN=C","missense_variant","MODERATE","accD5","Rv3280",1343,"p.Val448Ala"]
[3664615,"G","T","ANN=T","missense_variant","MODERATE","Rv3282","Rv3282",397,"p.Ala133Ser"]
[3667562,"T","C","ANN=C","synonymous_variant","LOW","accA3","Rv3285",1206,"p.Gly402Gly"]
[3670040,"C","T","ANN=T","synonymous_variant","LOW","Rv3289c","Rv3289c",372,"p.Ala124Ala"]
[3672233,"G","A","ANN=A","missense_variant","MODERATE","lrpA","Rv3291c",65,"p.Ala22Val"]
[3674418,"G","T","ANN=T","missense_variant","MODERATE","pcd","Rv3293",817,"p.Gly273Cys"]
[3678929,"G","A","ANN=A","missense_variant","MODERATE","lhr","Rv3296",2155,"p.Val719Met"]
[3679226,"G","A","ANN=A","missense_variant","MODERATE","lhr","Rv3296",2452,"p.Asp818Asn"]
[3679949,"A","G","ANN=G","missense_variant","MODERATE","lhr","Rv3296",3175,"p.Lys1059Glu"]
[3681548,"A","C","ANN=C","synonymous_variant","LOW","nei","Rv3297",229,"p.Arg77Arg"]
[3685354,"C","T","ANN=T","missense_variant","MODERATE","atsB","Rv3299c",610,"p.Gly204Ser"]
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[3690016,"A","G","ANN=G","missense_variant","MODERATE","lpdA","Rv3303c",923,"p.Leu308Ser"]
[3690854,"T","C","ANN=C","missense_variant","MODERATE","lpdA","Rv3303c",85,"p.Thr29Ala"]
[3693681,"A","C","ANN=C","synonymous_variant","LOW","amiB1","Rv3306c",309,"p.Ala103Ala"]
[3696181,"A","G","ANN=G","missense_variant","MODERATE","pmmB","Rv3308",1318,"p.Ser440Gly"]
[3697708,"A","G","ANN=G","missense_variant","MODERATE","sapM","Rv3310",511,"p.Thr171Ala"]
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[3702543,"G","A","ANN=A","missense_variant","MODERATE","deoA","Rv3314c",925,"p.Arg309Trp"]
[3704596,"G","C","ANN=C","missense_variant","MODERATE","sdhD","Rv3317",160,"p.Val54Leu"]
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[3705482,"G","A","ANN=A","synonymous_variant","LOW","sdhA","Rv3318",483,"p.Glu161Glu"]
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[3714211,"G","T","ANN=T","missense_variant","MODERATE","sigJ","Rv3328c",122,"p.Pro41Gln"]
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[3714757,"A","C","ANN=C","missense_variant","MODERATE","Rv3329","Rv3329",366,"p.Gln122His"]
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[3721806,"G","C","ANN=C","synonymous_variant","LOW","Rv3335c","Rv3335c",795,"p.Gly265Gly"]
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[3730582,"G","A","ANN=A","synonymous_variant","LOW","PPE54","Rv3343c",6354,"p.Asn2118Asn"]
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[3732122,"G","A","ANN=A","missense_variant","MODERATE","PPE54","Rv3343c",4814,"p.Ala1605Val"]
[3732194,"A","G","ANN=G","missense_variant","MODERATE","PPE54","Rv3343c",4742,"p.Ile1581Thr"]
[3732310,"G","A","ANN=A","synonymous_variant","LOW","PPE54","Rv3343c",4626,"p.Asn1542Asn"]
[3732469,"G","A","ANN=A","synonymous_variant","LOW","PPE54","Rv3343c",4467,"p.Gly1489Gly"]
[3736628,"T","G","ANN=G","missense_variant","MODERATE","PPE54","Rv3343c",308,"p.Glu103Ala"]
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[3746409,"A","G","ANN=G","missense_variant","MODERATE","PPE55","Rv3347c",6776,"p.Leu2259Pro"]
[3746926,"T","C","ANN=C","missense_variant","MODERATE","PPE55","Rv3347c",6259,"p.Thr2087Ala"]
[3748353,"C","G","ANN=G","missense_variant","MODERATE","PPE55","Rv3347c",4832,"p.Gly1611Ala"]
[3749920,"G","A","ANN=A","missense_variant","MODERATE","PPE55","Rv3347c",3265,"p.Pro1089Ser"]
[3750177,"A","T","ANN=T","missense_variant","MODERATE","PPE55","Rv3347c",3008,"p.Phe1003Tyr"]
[3750178,"A","C","ANN=C","missense_variant","MODERATE","PPE55","Rv3347c",3007,"p.Phe1003Val"]
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[3750193,"G","A","ANN=A","missense_variant","MODERATE","PPE55","Rv3347c",2992,"p.Leu998Phe"]
[3750205,"C","T","ANN=T","missense_variant","MODERATE","PPE55","Rv3347c",2980,"p.Asp994Asn"]
[3750210,"T","G","ANN=G","missense_variant","MODERATE","PPE55","Rv3347c",2975,"p.Asn992Thr"]
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[3750421,"T","C","ANN=C","missense_variant","MODERATE","PPE55","Rv3347c",2764,"p.Ser922Gly"]
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[3751031,"A","G","ANN=G","synonymous_variant","LOW","PPE55","Rv3347c",2154,"p.Gly718Gly"]
[3751037,"A","G","ANN=G","synonymous_variant","LOW","PPE55","Rv3347c",2148,"p.Asn716Asn"]
[3752207,"A","G","ANN=G","synonymous_variant","LOW","PPE55","Rv3347c",978,"p.Ile326Ile"]
[3752629,"G","T","ANN=T","missense_variant","MODERATE","PPE55","Rv3347c",556,"p.Leu186Ile"]
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[3758046,"C","T","ANN=T","synonymous_variant","LOW","PPE56","Rv3350c",9057,"p.Ser3019Ser"]
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[3766410,"C","G","ANN=G","synonymous_variant","LOW","PPE56","Rv3350c",693,"p.Gly231Gly"]
[3769445,"T","C","ANN=C","missense_variant","MODERATE","Rv3354","Rv3354",335,"p.Val112Ala"]
[3770588,"T","G","ANN=G","missense_variant","MODERATE","folD","Rv3356c",62,"p.Gln21Pro"]
[3770688,"C","T","ANN=T","upstream_gene_variant","MODIFIER","PPE56","Rv3350c",-3586]
[3771245,"G","A","ANN=A","synonymous_variant","LOW","relK","Rv3358",201,"p.Leu67Leu"]
[3771628,"A","C","ANN=C","synonymous_variant","LOW","Rv3359","Rv3359",285,"p.Ile95Ile"]
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[3776265,"G","T","ANN=T","synonymous_variant","LOW","Rv3365c","Rv3365c",1237,"p.Arg413Arg"]
[3782554,"G","A","ANN=A","synonymous_variant","LOW","dnaE2","Rv3370c",2187,"p.Ser729Ser"]
[3782805,"G","T","ANN=T","synonymous_variant","LOW","dnaE2","Rv3370c",1936,"p.Arg646Arg"]
[3785946,"A","G","ANN=G","missense_variant","MODERATE","Rv3371","Rv3371",1015,"p.Arg339Gly"]
[3786033,"A","G","ANN=G","missense_variant","MODERATE","Rv3371","Rv3371",1102,"p.Ile368Val"]
[3788365,"T","G","ANN=G","stop_lost&splice_region_variant","HIGH","echA18","Rv3373",640,"p.Ter214Glyext*?"]
[3791135,"T","C","ANN=C","missense_variant","MODERATE","Rv3377c","Rv3377c",1219,"p.Ile407Val"]
[3792712,"C","T","ANN=T","synonymous_variant","LOW","Rv3378c","Rv3378c",537,"p.Thr179Thr"]
[3794281,"C","T","ANN=T","missense_variant","MODERATE","dxs2","Rv3379c",587,"p.Cys196Tyr"]
[3798095,"A","C","ANN=C","missense_variant","MODERATE","idsB","Rv3383c",395,"p.Val132Gly"]
[3799957,"A","G","ANN=G","upstream_gene_variant","MODIFIER","Rv3380c","Rv3380c",-3871]
[3804277,"G","A","ANN=A","missense_variant","MODERATE","htdY","Rv3389c",515,"p.Pro172Leu"]
[3808103,"T","C","ANN=C","missense_variant","MODERATE","cmaA1","Rv3392c",335,"p.Asn112Ser"]
[3811327,"C","T","ANN=T","missense_variant","MODERATE","Rv3395c","Rv3395c",310,"p.Val104Met"]
[3811629,"G","A","ANN=A","missense_variant","MODERATE","Rv3395c","Rv3395c",8,"p.Ala3Val"]
[3814058,"G","A","ANN=A","synonymous_variant","LOW","guaA","Rv3396c",21,"p.Ile7Ile"]
[3815477,"G","T","ANN=T","synonymous_variant","LOW","idsA1","Rv3398c",630,"p.Ala210Ala"]
[3817117,"C","A","ANN=A","missense_variant","MODERATE","Rv3399","Rv3399",989,"p.Ala330Glu"]
[3820839,"G","C","ANN=C","stop_gained","HIGH","Rv3402c","Rv3402c",1053,"p.Tyr351*"]
[3823159,"A","T","ANN=T","synonymous_variant","LOW","Rv3403c","Rv3403c",705,"p.Val235Val"]
[3824746,"G","A","ANN=A","synonymous_variant","LOW","Rv3405c","Rv3405c",523,"p.Leu175Leu"]
[3826684,"C","T","ANN=T","missense_variant","MODERATE","vapC47","Rv3408",137,"p.Ser46Leu"]
[3829770,"T","C","ANN=C","synonymous_variant","LOW","guaB3","Rv3410c",141,"p.Pro47Pro"]
[3830695,"A","G","ANN=G","synonymous_variant","LOW","guaB2","Rv3411c",825,"p.Ala275Ala"]
[3838871,"A","G","ANN=G","synonymous_variant","LOW","rimI","Rv3420c",192,"p.Ala64Ala"]
[3857161,"T","C","ANN=C","missense_variant","MODERATE","Rv3437","Rv3437",251,"p.Leu84Pro"]
[3858247,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv3434c","Rv3434c",-4319]
[3859893,"C","T","ANN=T","synonymous_variant","LOW","Rv3440c","Rv3440c",84,"p.Glu28Glu"]
[3864995,"T","C","ANN=C","missense_variant","MODERATE","eccC4","Rv3447c",3244,"p.Ser1082Gly"]
[3870225,"C","T","ANN=T","synonymous_variant","LOW","mycP4","Rv3449",474,"p.Ile158Ile"]
[3871246,"T","C","ANN=C","synonymous_variant","LOW","eccB4","Rv3450c",1251,"p.Gly417Gly"]
[3875386,"G","A","ANN=A","missense_variant","MODERATE","Rv3454","Rv3454",565,"p.Val189Ile"]
[3877256,"C","T","ANN=T","synonymous_variant","LOW","rplQ","Rv3456c",177,"p.Ala59Ala"]
[3877421,"A","G","ANN=G","synonymous_variant","LOW","rplQ","Rv3456c",12,"p.Pro4Pro"]
[3879288,"C","A","ANN=A","missense_variant","MODERATE","rpsK","Rv3459c",405,"p.Lys135Asn"]
[3883626,"A","G","ANN=G","synonymous_variant","LOW","Rv3466","Rv3466",102,"p.Pro34Pro"]
[3883707,"T","C","ANN=C","synonymous_variant","LOW","Rv3466","Rv3466",183,"p.Leu61Leu"]
[3883711,"G","A","ANN=A","missense_variant","MODERATE","Rv3466","Rv3466",187,"p.Ala63Thr"]
[3885122,"G","A","ANN=A","synonymous_variant","LOW","Rv3468c","Rv3468c",948,"p.Asn316Asn"]
[3885886,"T","C","ANN=C","missense_variant","MODERATE","Rv3468c","Rv3468c",184,"p.Ile62Val"]
[3888877,"G","C","ANN=C","missense_variant","MODERATE","Rv3471c","Rv3471c",465,"p.Cys155Trp"]
[3892671,"A","G","ANN=G","synonymous_variant","LOW","kgtP","Rv3476c",1050,"p.Val350Val"]
[3893290,"G","A","ANN=A","missense_variant","MODERATE","kgtP","Rv3476c",431,"p.Ala144Val"]
[3893480,"G","A","ANN=A","missense_variant","MODERATE","kgtP","Rv3476c",241,"p.Leu81Phe"]
[3894169,"C","T","ANN=T","missense_variant","MODERATE","PE31","Rv3477",77,"p.Ala26Val"]
[3894818,"G","C","ANN=C","synonymous_variant","LOW","PPE60","Rv3478",393,"p.Thr131Thr"]
[3895727,"C","A","ANN=A","upstream_gene_variant","MODIFIER","bpoA","Rv3473c",-4994]
[3895819,"G","A","ANN=A","upstream_gene_variant","MODIFIER","kgtP","Rv3476c",-2099]
[3896340,"T","G","ANN=G","missense_variant","MODERATE","Rv3479","Rv3479",521,"p.Leu174Arg"]
[3898408,"A","G","ANN=G","synonymous_variant","LOW","Rv3479","Rv3479",2589,"p.Ala863Ala"]
[3898869,"C","A","ANN=A","missense_variant","MODERATE","Rv3479","Rv3479",3050,"p.Thr1017Asn"]
[3904490,"G","A","ANN=A","synonymous_variant","LOW","cpsA","Rv3484",1413,"p.Glu471Glu"]
[3907958,"G","A","ANN=A","missense_variant","MODERATE","Rv3488","Rv3488",292,"p.Gly98Arg"]
[3909235,"G","C","ANN=C","missense_variant","MODERATE","otsA","Rv3490",1000,"p.Val334Leu"]
[3912636,"T","C","ANN=C","missense_variant","MODERATE","mce4F","Rv3494c",734,"p.Asp245Gly"]
[3919439,"G","A","ANN=A","synonymous_variant","LOW","yrbE4B","Rv3500c",624,"p.Pro208Pro"]
[3921504,"C","G","ANN=G","synonymous_variant","LOW","Rv3502c","Rv3502c",537,"p.Ala179Ala"]
[3922836,"T","C","ANN=C","synonymous_variant","LOW","fadE26","Rv3504",366,"p.Asp122Asp"]
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[4004604,"A","G","ANN=G","missense_variant","MODERATE","fadE32","Rv3563",314,"p.Gln105Arg"]
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[4012219,"T","C","ANN=C","missense_variant","MODERATE","hsaA","Rv3570c",52,"p.Asn18Asp"]
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[4034827,"C","T","ANN=T","missense_variant","MODERATE","lpqF","Rv3593",476,"p.Ala159Val"]
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[4047039,"A","C","ANN=C","missense_variant","MODERATE","Rv3604c","Rv3604c",458,"p.Val153Gly"]
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[4067152,"G","A","ANN=A","missense_variant","MODERATE","Rv3627c","Rv3627c",134,"p.Ala45Val"]
[4069292,"G","A","ANN=A","missense_variant","MODERATE","Rv3630","Rv3630",118,"p.Ala40Thr"]
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[4078863,"C","T","ANN=T","missense_variant","MODERATE","Rv3640c","Rv3640c",887,"p.Gly296Glu"]
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[4099764,"T","C","ANN=C","missense_variant","MODERATE","Rv3661","Rv3661",118,"p.Ser40Pro"]
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[4105733,"T","C","ANN=C","missense_variant","MODERATE","dppA","Rv3666c",1352,"p.Glu451Gly"]
[4105757,"C","T","ANN=T","missense_variant","MODERATE","dppA","Rv3666c",1328,"p.Arg443Gln"]
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[4107973,"G","A","ANN=A","missense_variant","MODERATE","acs","Rv3667",182,"p.Gly61Glu"]
[4111303,"G","C","ANN=C","synonymous_variant","LOW","Rv3669","Rv3669",477,"p.Val159Val"]
[4112429,"T","C","ANN=C","missense_variant","MODERATE","Rv3671c","Rv3671c",1087,"p.Ile363Val"]
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[4119246,"T","C","ANN=C","synonymous_variant","LOW","Rv3679","Rv3679",471,"p.Asp157Asp"]
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[4128320,"C","G","ANN=G","missense_variant","MODERATE","cyp137","Rv3685c",406,"p.Glu136Gln"]
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[4157578,"G","A","ANN=A","missense_variant","MODERATE","Rv3712","Rv3712",598,"p.Gly200Ser"]
[4158032,"A","C","ANN=C","missense_variant","MODERATE","Rv3712","Rv3712",1052,"p.Lys351Thr"]
[4158361,"A","G","ANN=G","synonymous_variant","LOW","cobQ2","Rv3713",135,"p.Pro45Pro"]
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[4162339,"A","G","ANN=G","missense_variant","MODERATE","Rv3719","Rv3719",34,"p.Thr12Ala"]
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[4169830,"G","A","ANN=A","synonymous_variant","LOW","cut5b","Rv3724B",225,"p.Val75Val"]
[4171113,"T","C","ANN=C","synonymous_variant","LOW","Rv3725","Rv3725",900,"p.Ser300Ser"]
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[4176262,"G","A","ANN=A","missense_variant","MODERATE","Rv3728","Rv3728",1390,"p.Gly464Arg"]
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[4179089,"C","T","ANN=T","missense_variant","MODERATE","Rv3729","Rv3729",805,"p.Pro269Ser"]
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[4197555,"G","A","ANN=A","missense_variant","MODERATE","Rv3748","Rv3748",320,"p.Gly107Asp"]
[4200220,"A","G","ANN=G","start_lost","HIGH","Rv3753c","Rv3753c",2,"p.Met1?"]
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[4205120,"A","G","ANN=G","missense_variant","MODERATE","proX","Rv3759c",254,"p.Leu85Pro"]
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[4210274,"A","G","ANN=G","missense_variant","MODERATE","tcrY","Rv3764c",736,"p.Cys246Arg"]
[4210876,"T","C","ANN=C","missense_variant","MODERATE","tcrY","Rv3764c",134,"p.His45Arg"]
[4212174,"T","C","ANN=C","upstream_gene_variant","MODIFIER","Rv3762c","Rv3762c",-3298]
[4215001,"C","A","ANN=A","upstream_gene_variant","MODIFIER","tcrY","Rv3764c",-3992]
[4215484,"G","C","ANN=C","missense_variant","MODERATE","Rv3770c","Rv3770c",292,"p.Pro98Ala"]
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[4217557,"A","G","ANN=G","missense_variant","MODERATE","hisC2","Rv3772",424,"p.Thr142Ala"]
[4221490,"C","G","ANN=G","synonymous_variant","LOW","Rv3776","Rv3776",402,"p.Leu134Leu"]
[4222073,"A","G","ANN=G","missense_variant","MODERATE","Rv3776","Rv3776",985,"p.Met329Val"]
[4222882,"A","G","ANN=G","synonymous_variant","LOW","Rv3777","Rv3777",189,"p.Leu63Leu"]
[4223172,"T","C","ANN=C","missense_variant","MODERATE","Rv3777","Rv3777",479,"p.Val160Ala"]
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[4231433,"A","G","ANN=G","synonymous_variant","LOW","Rv3785","Rv3785",114,"p.Ala38Ala"]
[4232327,"A","G","ANN=G","synonymous_variant","LOW","Rv3785","Rv3785",1008,"p.Arg336Arg"]
[4233634,"G","A","ANN=A","synonymous_variant","LOW","Rv3787c","Rv3787c",903,"p.Asn301Asn"]
[4236150,"C","T","ANN=T","synonymous_variant","LOW","dprE1","Rv3790",372,"p.Gly124Gly"]
[4240671,"C","T","ANN=T","missense_variant","MODERATE","embC","Rv3793",809,"p.Thr270Ile"]
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[4244220,"C","T","ANN=T","synonymous_variant","LOW","embA","Rv3794",988,"p.Leu330Leu"]
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[4269351,"G","A","ANN=A","synonymous_variant","LOW","ubiA","Rv3806c",483,"p.Ala161Ala"]
[4269387,"T","G","ANN=G","missense_variant","MODERATE","ubiA","Rv3806c",447,"p.Glu149Asp"]
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[4284438,"G","A","ANN=A","missense_variant","MODERATE","papA2","Rv3820c",1388,"p.Thr463Ile"]
[4286288,"G","A","ANN=A","missense_variant","MODERATE","Rv3821","Rv3821",316,"p.Asp106Asn"]
[4286330,"G","A","ANN=A","missense_variant","MODERATE","Rv3821","Rv3821",358,"p.Ala120Thr"]
[4286884,"G","A","ANN=A","missense_variant","MODERATE","Rv3822","Rv3822",164,"p.Cys55Tyr"]
[4287028,"A","C","ANN=C","missense_variant","MODERATE","Rv3822","Rv3822",308,"p.Asn103Thr"]
[4287164,"A","G","ANN=G","synonymous_variant","LOW","Rv3822","Rv3822",444,"p.Gly148Gly"]
[4287361,"C","T","ANN=T","missense_variant","MODERATE","Rv3822","Rv3822",641,"p.Ala214Val"]
[4289953,"A","G","ANN=G","missense_variant","MODERATE","mmpL8","Rv3823c",1577,"p.Val526Ala"]
[4290564,"G","T","ANN=T","synonymous_variant","LOW","mmpL8","Rv3823c",966,"p.Ala322Ala"]
[4290827,"C","G","ANN=G","missense_variant","MODERATE","mmpL8","Rv3823c",703,"p.Gly235Arg"]
[4292095,"C","A","ANN=A","synonymous_variant","LOW","papA1","Rv3824c",1080,"p.Ala360Ala"]
[4296015,"G","A","ANN=A","synonymous_variant","LOW","pks2","Rv3825c",3591,"p.Asp1197Asp"]
[4302036,"T","C","ANN=C","missense_variant","MODERATE","Rv3827c","Rv3827c",754,"p.Thr252Ala"]
[4302310,"A","C","ANN=C","synonymous_variant","LOW","Rv3827c","Rv3827c",480,"p.Leu160Leu"]
[4304847,"C","A","ANN=A","missense_variant","MODERATE","Rv3829c","Rv3829c",162,"p.Glu54Asp"]
[4306155,"C","T","ANN=T","synonymous_variant","LOW","Rv3831","Rv3831",399,"p.Ser133Ser"]
[4307179,"G","A","ANN=A","missense_variant","MODERATE","Rv3833","Rv3833",313,"p.Val105Ile"]
[4310958,"G","A","ANN=A","upstream_gene_variant","MODIFIER","Rv3832c","Rv3832c",-4147]
[4313128,"C","T","ANN=T","missense_variant","MODERATE","Rv3839","Rv3839",364,"p.Pro122Ser"]
[4314645,"A","G","ANN=G","synonymous_variant","LOW","bfrB","Rv3841",468,"p.Leu156Leu"]
[4316322,"C","T","ANN=T","missense_variant","MODERATE","Rv3843c","Rv3843c",275,"p.Arg92His"]
[4316566,"C","G","ANN=G","missense_variant","MODERATE","Rv3843c","Rv3843c",31,"p.Gly11Arg"]
[4318425,"C","G","ANN=G","upstream_gene_variant","MODIFIER","glpQ1","Rv3842c",-2863]
[4321317,"T","C","ANN=C","missense_variant","MODERATE","sodA","Rv3846",614,"p.Ile205Thr"]
[4322905,"G","A","ANN=A","missense_variant","MODERATE","Rv3848","Rv3848",580,"p.Val194Ile"]
[4323006,"G","A","ANN=A","synonymous_variant","LOW","Rv3848","Rv3848",681,"p.Ala227Ala"]
[4329782,"G","A","ANN=A","upstream_gene_variant","MODIFIER","ethA","Rv3854c",-2309]
[4330238,"C","T","ANN=T","missense_variant","MODERATE","gltD","Rv3858c",1268,"p.Arg423His"]
[4334425,"G","C","ANN=C","missense_variant","MODERATE","gltB","Rv3859c",1657,"p.Gln553Glu"]
[4336597,"C","A","ANN=A","upstream_gene_variant","MODIFIER","gltB","Rv3859c",-516]
[4337468,"T","C","ANN=C","missense_variant","MODERATE","Rv3860","Rv3860",692,"p.Val231Ala"]
[4338732,"G","A","ANN=A","upstream_gene_variant","MODIFIER","gltB","Rv3859c",-2651]
[4344041,"C","T","ANN=T","missense_variant","MODERATE","eccA1","Rv3868",728,"p.Ala243Val"]
[4351039,"G","T","ANN=T","stop_gained","HIGH","PE35","Rv3872",295,"p.Glu99*"]
[4356110,"G","C","ANN=C","synonymous_variant","LOW","eccD1","Rv3877",1104,"p.Leu368Leu"]
[4356825,"G","A","ANN=A","missense_variant","MODERATE","espJ","Rv3878",133,"p.Glu45Lys"]
[4357421,"G","A","ANN=A","synonymous_variant","LOW","espJ","Rv3878",729,"p.Gly243Gly"]
[4357597,"C","G","ANN=G","missense_variant","MODERATE","espK","Rv3879c",2186,"p.Cys729Ser"]
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[4364649,"T","C","ANN=C","missense_variant","MODERATE","mycP1","Rv3883c",109,"p.Thr37Ala"]
[4366195,"T","C","ANN=C","missense_variant","MODERATE","eccA2","Rv3884c",644,"p.Glu215Gly"]
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[4374228,"T","C","ANN=C","missense_variant","MODERATE","esxD","Rv3891c",145,"p.Thr49Ala"]
[4375628,"G","T","ANN=T","missense_variant","MODERATE","PPE69","Rv3892c",56,"p.Thr19Lys"]
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[4380880,"T","C","ANN=C","missense_variant","MODERATE","eccB2","Rv3895c",1061,"p.Asp354Gly"]
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[4382296,"T","C","ANN=C","missense_variant","MODERATE","Rv3896c","Rv3896c",556,"p.Ile186Val"]
[4382604,"T","C","ANN=C","missense_variant","MODERATE","Rv3896c","Rv3896c",248,"p.Asp83Gly"]
[4383655,"A","G","ANN=G","stop_lost&splice_region_variant","HIGH","Rv3898c","Rv3898c",331,"p.Ter111Glnext*?"]
[4385187,"A","G","ANN=G","missense_variant","MODERATE","Rv3899c","Rv3899c",193,"p.Ser65Pro"]
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[4386753,"A","C","ANN=C","missense_variant","MODERATE","Rv3901c","Rv3901c",62,"p.Leu21Trp"]
[4390466,"T","C","ANN=C","missense_variant","MODERATE","esxE","Rv3904c",244,"p.Met82Val"]
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[4393838,"C","T","ANN=T","synonymous_variant","LOW","mutT4","Rv3908",390,"p.Leu130Leu"]
[4394210,"G","C","ANN=C","missense_variant","MODERATE","Rv3909","Rv3909",19,"p.Gly7Arg"]
[4394265,"G","C","ANN=C","missense_variant","MODERATE","Rv3909","Rv3909",74,"p.Gly25Ala"]
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[4398035,"T","C","ANN=C","missense_variant","MODERATE","Rv3910","Rv3910",1439,"p.Val480Ala"]
[4401897,"A","G","ANN=G","missense_variant","MODERATE","trxB2","Rv3913",170,"p.Asp57Gly"]
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[4408570,"G","A","ANN=A","missense_variant","MODERATE","Rv3920c","Rv3920c",328,"p.Arg110Trp"]
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[4408923,"C","T","ANN=T","upstream_gene_variant","MODIFIER","Rv3916c","Rv3916c",-3756]

{"sheet":"Cell_wall","index":1,"n_rows":440,"n_cols":10,"rows_kept":440,"flags":["formulas_cached_only"]}
["Rv_locus","rsid","Chr_po","Ref","Altq","Type","Effect","Gene","Gene_pos","aa_change"]
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["Rv0008c","rs157698055",11879,"A","G","missense_variant","MODERATE","Rv0008c",433,"p.Ser145Pro"]
["Rv0010c","NA",13197,"G","C","missense_variant","MODERATE","Rv0010c",362,"p.Thr121Ser"]
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["Rv0012","rs157726934",14401,"A","G","missense_variant","MODERATE","Rv0012",313,"p.Lys105Glu"]
["Rv0012","rs157726935",14785,"T","C","missense_variant","MODERATE","Rv0012",697,"p.Cys233Arg"]
["Rv0039c","rs157698306",42281,"C","A","missense_variant","MODERATE","Rv0039c",71,"p.Cys24Phe"]
["Rv0040c","rs157698315",42967,"G","C","synonymous_variant","LOW","mtc28",399,"p.Pro133Pro"]
["Rv0048c","rs157698356",51949,"A","G","missense_variant","MODERATE","Rv0048c",749,"p.Val250Ala"]
["Rv0048c","NA",52028,"C","T","missense_variant","MODERATE","Rv0048c",670,"p.Gly224Ser"]
["Rv0050","NA",53679,"C","T","missense_variant","MODERATE","ponA1",17,"p.Pro6Leu"]
["Rv0050","rs157698365",54394,"A","G","synonymous_variant","LOW","ponA1",732,"p.Ala244Ala"]
["Rv0064","rs157727016",69989,"G","A","missense_variant","MODERATE","Rv0064",1370,"p.Gly457Asp"]
["Rv0064","rs157698471",70267,"G","T","missense_variant","MODERATE","Rv0064",1648,"p.Val550Phe"]
["Rv0064","rs157698474",70816,"A","G","missense_variant","MODERATE","Rv0064",2197,"p.Asn733Asp"]
["Rv0076c","rs157698557",89535,"C","T","upstream_gene_variant","MODIFIER","Rv0076c",-3963]
["Rv0092","rs157699010",100589,"A","G","missense_variant","MODERATE","ctpA",7,"p.Thr3Ala"]
["Rv0093c","rs157727064",103600,"A","G","missense_variant","MODERATE","Rv0093c",64,"p.Cys22Arg"]
["Rv0103c","rs157699212",122109,"A","G","missense_variant","MODERATE","ctpB",65,"p.Leu22Ser"]
["Rv0103c","rs157699226",123842,"C","T","upstream_gene_variant","MODIFIER","ctpB",-1669]
["Rv0107c","NA",126563,"C","A","missense_variant","MODERATE","ctpI",3979,"p.Ala1327Ser"]
["Rv0107c","rs157699244",126803,"A","G","missense_variant","MODERATE","ctpI",3739,"p.Ser1247Pro"]
["Rv0107c","NA",130135,"G","A","missense_variant","MODERATE","ctpI",407,"p.Ala136Val"]
["Rv0107c","rs157727090",133839,"C","T","upstream_gene_variant","MODIFIER","ctpI",-3298]
["Rv0112","rs157699284",137185,"G","A","synonymous_variant","LOW","gca",897,"p.Gln299Gln"]
["Rv0114","NA",138301,"G","A","missense_variant","MODERATE","gmhB",361,"p.Gly121Arg"]
["Rv0143c","rs157699482",170083,"A","G","missense_variant","MODERATE","Rv0143c",100,"p.Phe34Leu"]
["Rv0176","rs157700096",208322,"T","G","missense_variant","MODERATE","Rv0176",871,"p.Ser291Ala"]
["Rv0179c","rs157700130",210442,"C","T","missense_variant","MODERATE","lprO",371,"p.Arg124His"]
["Rv0179c","NA",212254,"G","A","upstream_gene_variant","MODIFIER","lprO",-1442]
["Rv0194","NA",227022,"A","G","missense_variant","MODERATE","Rv0194",145,"p.Ile49Val"]
["Rv0194","rs157700295",227098,"T","C","missense_variant","MODERATE","Rv0194",221,"p.Met74Thr"]
["Rv0194","NA",227545,"C","T","missense_variant","MODERATE","Rv0194",668,"p.Thr223Met"]
["Rv0194","NA",227860,"C","T","missense_variant","MODERATE","Rv0194",983,"p.Pro328Leu"]
["Rv0194","NA",228731,"C","T","synonymous_variant","LOW","Rv0194",1854,"p.Arg618Arg"]
["Rv0205","rs157727241",243598,"A","G","missense_variant","MODERATE","Rv0205",215,"p.His72Arg"]
["Rv0205","NA",244393,"T","C","missense_variant","MODERATE","Rv0205",1010,"p.Val337Ala"]
["Rv0206c","rs157700577",245921,"G","C","missense_variant","MODERATE","mmpL3",1398,"p.Asp466Glu"]
["Rv0206c","rs157700579",246169,"A","T","missense_variant","MODERATE","mmpL3",1150,"p.Phe384Ile"]
["Rv0206c","rs157700601",251669,"T","C","upstream_gene_variant","MODIFIER","mmpL3",-4351]
["Rv0218","rs157700634",261869,"T","C","missense_variant","MODERATE","Rv0218",946,"p.Cys316Arg"]
["Rv0218","NA",262160,"G","A","missense_variant","MODERATE","Rv0218",1237,"p.Asp413Asn"]
["Rv0227c","NA",271665,"C","T","missense_variant","MODERATE","Rv0227c",1175,"p.Ser392Asn"]
["Rv0227c","NA",272753,"G","C","missense_variant","MODERATE","Rv0227c",87,"p.Ser29Arg"]
["Rv0229c","NA",277862,"G","T","upstream_gene_variant","MODIFIER","Rv0229c",-2876]
["Rv0236c","rs157700722",283614,"T","C","missense_variant","MODERATE","aftD",3238,"p.Ser1080Gly"]
["Rv0236c","NA",283884,"T","C","missense_variant","MODERATE","aftD",2968,"p.Thr990Ala"]
["Rv0236c","NA",285618,"T","C","missense_variant","MODERATE","aftD",1234,"p.Met412Val"]
["Rv0236c","rs157727262",285772,"A","C","synonymous_variant","LOW","aftD",1080,"p.Pro360Pro"]
["Rv0236c","rs157727263",285871,"A","G","synonymous_variant","LOW","aftD",981,"p.Val327Val"]
["Rv0237","NA",287570,"G","T","missense_variant","MODERATE","lpqI",385,"p.Val129Leu"]
["Rv0261c","NA",312851,"G","A","synonymous_variant","LOW","narK3",1318,"p.Leu440Leu"]
["Rv0261c","NA",313869,"G","A","synonymous_variant","LOW","narK3",300,"p.Ser100Ser"]
["Rv0267","NA",322684,"C","T","synonymous_variant","LOW","narU",1354,"p.Leu452Leu"]
["Rv0282","rs157701077",342146,"A","C","missense_variant","MODERATE","eccA3",17,"p.Glu6Ala"]
["Rv0282","rs157701088",343281,"G","C","synonymous_variant","LOW","eccA3",1152,"p.Ala384Ala"]
["Rv0284","rs157727328",346275,"C","G","missense_variant","MODERATE","eccC3",641,"p.Pro214Arg"]
["Rv0290","NA",354280,"G","A","missense_variant","MODERATE","eccD3",1198,"p.Ala400Thr"]
["Rv0292","rs157701147",356528,"A","G","missense_variant","MODERATE","eccE3",649,"p.Asn217Asp"]
["Rv0314c","NA",382991,"A","G","missense_variant","MODERATE","Rv0314c",551,"p.Val184Ala"]
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["Rv0318c","rs157701281",386432,"C","G","missense_variant","MODERATE","Rv0318c",668,"p.Gly223Ala"]
["Rv0342","NA",411100,"A","G","missense_variant","MODERATE","iniA",263,"p.Asn88Ser"]
["Rv0342","rs157701419",412280,"T","G","missense_variant","MODERATE","iniA",1443,"p.His481Gln"]
["Rv0344c","rs157701422",414486,"C","T","synonymous_variant","LOW","lpqJ",456,"p.Glu152Glu"]
["Rv0359","rs157701683",438271,"G","A","missense_variant","MODERATE","Rv0359",754,"p.Ala252Thr"]
["Rv0364","NA",442971,"A","C","missense_variant","MODERATE","Rv0364",577,"p.Ile193Leu"]
["Rv0402c","NA",481880,"A","G","missense_variant","MODERATE","mmpL1",1352,"p.Leu451Pro"]
["Rv0412c","rs157727478",498531,"A","G","synonymous_variant","LOW","Rv0412c",1089,"p.Ala363Ala"]
["Rv0412c","rs157702037",498557,"C","A","missense_variant","MODERATE","Rv0412c",1063,"p.Asp355Tyr"]
["Rv0412c","rs157702076",503354,"G","C","upstream_gene_variant","MODIFIER","Rv0412c",-3735]
["Rv0419","rs157702095",505974,"G","A","missense_variant","MODERATE","lpqM",889,"p.Ala297Thr"]
["Rv0425c","rs157702257",513257,"T","C","missense_variant","MODERATE","ctpH",2065,"p.Met689Val"]
["Rv0425c","rs157702297",514657,"T","G","missense_variant","MODERATE","ctpH",665,"p.Glu222Ala"]
["Rv0431","rs157702355",519185,"T","G","missense_variant","MODERATE","Rv0431",113,"p.Val38Gly"]
["Rv0431","rs157702356",519331,"A","G","missense_variant","MODERATE","Rv0431",259,"p.Thr87Ala"]
["Rv0435c","rs157702417",528354,"C","A","upstream_gene_variant","MODIFIER","Rv0435c",-3821]
["Rv0450c","NA",539863,"A","G","synonymous_variant","LOW","mmpL4",1629,"p.Ser543Ser"]
["Rv0450c","NA",539883,"A","G","synonymous_variant","LOW","mmpL4",1609,"p.Leu537Leu"]
["Rv0450c","rs157702479",541201,"A","G","synonymous_variant","LOW","mmpL4",291,"p.Leu97Leu"]
["Rv0507","rs157702702",597816,"A","G","synonymous_variant","LOW","mmpL2",618,"p.Ala206Ala"]
["Rv0507","rs157702707",598475,"G","A","missense_variant","MODERATE","mmpL2",1277,"p.Arg426His"]
["Rv0507","rs157727615",598723,"G","T","missense_variant","MODERATE","mmpL2",1525,"p.Asp509Tyr"]
["Rv0507","rs157702710",599363,"C","G","missense_variant","MODERATE","mmpL2",2165,"p.Ser722Cys"]
["Rv0507","rs157702711",599868,"A","G","synonymous_variant","LOW","mmpL2",2670,"p.Arg890Arg"]
["Rv0519c","rs157702742",611373,"T","C","synonymous_variant","LOW","Rv0519c",702,"p.Gln234Gln"]
["Rv0538","NA",630687,"G","T","synonymous_variant","LOW","Rv0538",648,"p.Pro216Pro"]
["Rv0538","rs157702850",630722,"G","C","missense_variant","MODERATE","Rv0538",683,"p.Arg228Pro"]
["Rv0541c","NA",633729,"T","C","missense_variant","MODERATE","Rv0541c",676,"p.Ile226Val"]
["Rv0545c","rs157702872",637319,"G","A","missense_variant","MODERATE","pitA",145,"p.Pro49Ser"]
["Rv0556","rs157702925",648002,"T","G","missense_variant","MODERATE","Rv0556",44,"p.Leu15Arg"]
["Rv0584","NA",679497,"A","G","missense_variant","MODERATE","Rv0584",269,"p.Asp90Gly"]
["Rv0585c","rs157703113",684290,"A","G","upstream_gene_variant","MODIFIER","Rv0585c",-18]
["Rv0593","NA",692588,"C","T","stop_gained","HIGH","lprL",565,"p.Gln189*"]
["Rv0604","rs157703219",700776,"T","C","missense_variant","MODERATE","lpqO",538,"p.Ser180Pro"]
["Rv0621","rs157703343",715266,"A","G","stop_lost&splice_region_variant","HIGH","Rv0621",1065,"p.Ter355Trpext*?"]
["Rv0625c","rs157703357",717588,"A","G","synonymous_variant","LOW","Rv0625c",306,"p.Val102Val"]
["Rv0676c","rs157703629",775639,"T","C","missense_variant","MODERATE","mmpL5",2842,"p.Ile948Val"]
["Rv0676c","rs157703630",776100,"G","A","missense_variant","MODERATE","mmpL5",2381,"p.Thr794Ile"]
["Rv0676c","rs157703650",781395,"T","C","upstream_gene_variant","MODIFIER","mmpL5",-2915]
["Rv0686","NA",786393,"T","G","missense_variant","MODERATE","Rv0686",245,"p.Ile82Ser"]
["Rv0724","rs157703921",815851,"A","G","synonymous_variant","LOW","sppA",189,"p.Arg63Arg"]
["Rv0774c","NA",867697,"A","C","missense_variant","MODERATE","Rv0774c",655,"p.Ser219Ala"]
["Rv0774c","NA",868271,"T","C","synonymous_variant","LOW","Rv0774c",81,"p.Ala27Ala"]
["Rv0783c","NA",877720,"G","A","synonymous_variant","LOW","emrB",721,"p.Leu241Leu"]
["Rv0783c","NA",877721,"G","A","synonymous_variant","LOW","emrB",720,"p.Gly240Gly"]
["Rv0806c","NA",900215,"C","G","synonymous_variant","LOW","cpsY",1116,"p.Arg372Arg"]
["Rv0806c","rs157704544",900221,"T","C","synonymous_variant","LOW","cpsY",1110,"p.Val370Val"]
["Rv0820","NA",912830,"C","G","missense_variant","MODERATE","phoT",105,"p.Phe35Leu"]
["Rv0820","rs157704594",913274,"C","G","synonymous_variant","LOW","phoT",549,"p.Ser183Ser"]
["Rv0821c","rs157704605",916350,"G","A","upstream_gene_variant","MODIFIER","phoY2",-2151]
["Rv0821c","NA",918799,"T","C","upstream_gene_variant","MODIFIER","phoY2",-4600]
["Rv0835","rs157704659",931123,"T","C","synonymous_variant","LOW","lpqQ",171,"p.Tyr57Tyr"]
["Rv0835","NA",931437,"A","G","missense_variant","MODERATE","lpqQ",485,"p.Asp162Gly"]
["Rv0841","NA",937677,"G","T","missense_variant","MODERATE","Rv0841",85,"p.Val29Phe"]
["Rv0842","rs157704691",938246,"A","G","synonymous_variant","LOW","Rv0842",135,"p.Leu45Leu"]
["Rv0849","NA",947294,"T","C","synonymous_variant","LOW","Rv0849",1239,"p.Gly413Gly"]
["Rv0907","NA",1011100,"C","T","missense_variant","MODERATE","Rv0907",965,"p.Pro322Leu"]
["Rv0930","rs157705531",1037012,"T","C","missense_variant","MODERATE","pstA1",14,"p.Met5Thr"]
["Rv0930","rs157727890",1037911,"C","T","stop_gained","HIGH","pstA1",913,"p.Arg305*"]
["Rv0932c","rs157705549",1040706,"A","C","missense_variant","MODERATE","pstS2",343,"p.Ser115Ala"]
["Rv0934","rs157705561",1043169,"T","C","missense_variant","MODERATE","pstS1",1055,"p.Val352Ala"]
["Rv0962c","rs157727929",1074558,"G","A","missense_variant","MODERATE","lprP",557,"p.Pro186Leu"]
["Rv0962c","rs157705884",1075279,"T","C","upstream_gene_variant","MODIFIER","lprP",-165]
["Rv0969","rs157706050",1079927,"C","A","synonymous_variant","LOW","ctpV",1185,"p.Thr395Thr"]
["Rv0969","rs157706051",1080192,"G","A","missense_variant","MODERATE","ctpV",1450,"p.Asp484Asn"]
["Rv0970","rs157728013",1081681,"T","C","synonymous_variant","LOW","Rv0970",630,"p.Val210Val"]
["Rv0986","rs157706142",1102484,"G","T","missense_variant","MODERATE","Rv0986",682,"p.Val228Leu"]
["Rv0987","rs157706161",1104690,"T","G","missense_variant","MODERATE","Rv0987",2149,"p.Phe717Val"]
["Rv0987","NA",1105073,"A","G","synonymous_variant","LOW","Rv0987",2532,"p.Gly844Gly"]
["Rv0988","rs157706165",1105284,"G","A","missense_variant","MODERATE","Rv0988",169,"p.Val57Ile"]
["Rv0988","NA",1105518,"T","G","missense_variant","MODERATE","Rv0988",403,"p.Tyr135Asp"]
["Rv0996","NA",1112658,"A","G","missense_variant","MODERATE","Rv0996",275,"p.Asp92Gly"]
["Rv0996","rs157706205",1113290,"G","C","missense_variant","MODERATE","Rv0996",907,"p.Glu303Gln"]
["Rv1002c","rs157706234",1119597,"C","G","missense_variant","MODERATE","Rv1002c",343,"p.Val115Leu"]
["Rv1008","rs157706258",1127648,"C","A","missense_variant","MODERATE","tatD",560,"p.Thr187Asn"]
["Rv1009","NA",1128935,"G","A","missense_variant","MODERATE","rpfB",845,"p.Gly282Glu"]
["Rv1009","NA",1129160,"C","T","missense_variant","MODERATE","rpfB",1070,"p.Ala357Val"]
["Rv1018c","NA",1137582,"T","C","missense_variant","MODERATE","glmU",479,"p.Glu160Gly"]
["Rv1022","rs157706302",1143832,"A","C","missense_variant","MODERATE","lpqU",97,"p.Thr33Pro"]
["Rv1028A","rs157706322",1148259,"A","G","upstream_gene_variant","MODIFIER","kdpF",-3661]
["Rv1086","rs157706627",1211369,"A","C","missense_variant","MODERATE","Rv1086",775,"p.Ser259Arg"]
["Rv1097c","NA",1226077,"G","A","missense_variant","MODERATE","Rv1097c",68,"p.Pro23Leu"]
["Rv1115","NA",1240241,"T","C","missense_variant","MODERATE","Rv1115",55,"p.Ser19Pro"]
["Rv1184c","NA",1324565,"G","A","synonymous_variant","LOW","Rv1184c",1047,"p.Arg349Arg"]
["Rv1197","NA",1340667,"A","G","synonymous_variant","LOW","esxK",9,"p.Ser3Ser"]
["Rv1198","NA",1341040,"C","A","missense_variant","MODERATE","esxL",35,"p.Ala12Asp"]
["Rv1198","NA",1341044,"C","T","synonymous_variant","LOW","esxL",39,"p.His13His"]
["Rv1198","NA",1341209,"C","T","synonymous_variant","LOW","esxL",204,"p.Ala68Ala"]
["Rv1217c","rs157707362",1360209,"T","C","synonymous_variant","LOW","Rv1217c",1593,"p.Ala531Ala"]
["Rv1217c","NA",1361375,"C","T","missense_variant","MODERATE","Rv1217c",427,"p.Ala143Thr"]
["Rv1218c","rs157707374",1362006,"T","C","missense_variant","MODERATE","Rv1218c",728,"p.Gln243Arg"]
["Rv1224","rs157707393",1367484,"T","G","missense_variant","MODERATE","tatB",22,"p.Trp8Gly"]
["Rv1226c","rs157707398",1368947,"A","G","missense_variant","MODERATE","Rv1226c",1349,"p.Val450Ala"]
["Rv1230c","NA",1373909,"A","G","missense_variant","MODERATE","Rv1230c",289,"p.Ser97Pro"]
["Rv1230c","rs157707429",1374065,"T","C","missense_variant","MODERATE","Rv1230c",133,"p.Ser45Gly"]
["Rv1233c","NA",1376624,"C","T","missense_variant","MODERATE","Rv1233c",203,"p.Gly68Asp"]
["Rv1233c","NA",1376691,"T","C","missense_variant","MODERATE","Rv1233c",136,"p.Asn46Asp"]
["Rv1234","NA",1377140,"A","G","synonymous_variant","LOW","Rv1234",165,"p.Glu55Glu"]
["Rv1239c","rs157707454",1382628,"T","C","missense_variant","MODERATE","corA",415,"p.Lys139Glu"]
["Rv1244","NA",1386922,"C","T","synonymous_variant","LOW","lpqZ",66,"p.Gly22Gly"]
["Rv1244","rs157707503",1387580,"C","A","missense_variant","MODERATE","lpqZ",724,"p.Gln242Lys"]
["Rv1249c","rs157728183",1393626,"A","G","synonymous_variant","LOW","Rv1249c",357,"p.Leu119Leu"]
["Rv1249c","NA",1393700,"C","T","missense_variant","MODERATE","Rv1249c",283,"p.Ala95Thr"]
["Rv1250","rs157707528",1395010,"A","G","missense_variant","MODERATE","Rv1250",832,"p.Arg278Gly"]
["Rv1273c","NA",1423826,"C","T","synonymous_variant","LOW","Rv1273c",225,"p.Ala75Ala"]
["Rv1274","rs157707701",1424699,"T","C","missense_variant","MODERATE","lprB",503,"p.Leu168Pro"]
["Rv1272c","NA",1425319,"G","A","upstream_gene_variant","MODIFIER","Rv1272c",-3014]
["Rv1291c","rs157707791",1445781,"A","G","synonymous_variant","LOW","Rv1291c",54,"p.Ala18Ala"]
["Rv1302","rs157707849",1459364,"T","G","missense_variant","MODERATE","rfe",1070,"p.Val357Gly"]
["Rv1312","NA",1467695,"C","T","missense_variant","MODERATE","Rv1312",8,"p.Ala3Val"]
["Rv1312","rs157707874",1467735,"G","A","synonymous_variant","LOW","Rv1312",48,"p.Gly16Gly"]
["Rv1315","NA",1471217,"C","T","synonymous_variant","LOW","murA",897,"p.Phe299Phe"]
["Rv1338","rs157708175",1505194,"T","C","synonymous_variant","LOW","murI",120,"p.Gly40Gly"]
["Rv1343c","rs157708187",1508682,"T","G","missense_variant","MODERATE","lprD",242,"p.Glu81Ala"]
["Rv1371","rs157708322",1544255,"C","T","synonymous_variant","LOW","Rv1371",897,"p.Arg299Arg"]
["Rv1410c","NA",1589311,"T","G","upstream_gene_variant","MODIFIER","Rv1410c",-1545]
["Rv1411c","NA",1593456,"C","T","upstream_gene_variant","MODIFIER","lprG",-4974]
["Rv1431","rs157708675",1608276,"A","C","missense_variant","MODERATE","Rv1431",194,"p.Asn65Thr"]
["Rv1431","NA",1609445,"A","C","missense_variant","MODERATE","Rv1431",1363,"p.Lys455Gln"]
["Rv1431","rs157708678",1609840,"A","G","synonymous_variant","LOW","Rv1431",1758,"p.Pro586Pro"]
["Rv1433","rs157708685",1611283,"T","C","upstream_gene_variant","MODIFIER","Rv1433",-151]
["Rv1435c","NA",1612752,"C","T","missense_variant","MODERATE","Rv1435c",199,"p.Ala67Thr"]
["Rv1435c","rs157708690",1613035,"T","C","upstream_gene_variant","MODIFIER","Rv1435c",-85]
["Rv1459c","rs157708896",1645802,"T","C","missense_variant","MODERATE","Rv1459c",337,"p.Lys113Glu"]
["Rv1473","NA",1661870,"G","A","synonymous_variant","LOW","Rv1473",1215,"p.Gln405Gln"]
["Rv1481","NA",1671658,"C","T","synonymous_variant","LOW","Rv1481",282,"p.Arg94Arg"]
["Rv1491c","NA",1681928,"C","T","synonymous_variant","LOW","Rv1491c",39,"p.Val13Val"]
["Rv1491c","NA",1686269,"C","T","upstream_gene_variant","MODIFIER","Rv1491c",-4303]
["Rv1517","rs157709288",1709432,"C","T","missense_variant","MODERATE","Rv1517",562,"p.Leu188Phe"]
["Rv1522c","rs157709314",1714290,"G","T","stop_gained","HIGH","mmpL12",3323,"p.Ser1108*"]
["Rv1522c","NA",1714773,"C","T","missense_variant","MODERATE","mmpL12",2840,"p.Ser947Asn"]
["Rv1522c","rs157709322",1716472,"A","G","missense_variant","MODERATE","mmpL12",1141,"p.Ser381Pro"]
["Rv1522c","NA",1717003,"T","C","missense_variant","MODERATE","mmpL12",610,"p.Thr204Ala"]
["Rv1624c","rs157709925",1826054,"T","C","missense_variant","MODERATE","Rv1624c",532,"p.Thr178Ala"]
["Rv1634","rs157710036",1839260,"T","G","synonymous_variant","LOW","Rv1634",93,"p.Leu31Leu"]
["Rv1634","rs157710041",1839759,"G","C","missense_variant","MODERATE","Rv1634",592,"p.Gly198Arg"]
["Rv1639c","rs157710075",1847919,"C","G","synonymous_variant","LOW","Rv1639c",540,"p.Thr180Thr"]
["Rv1668c","rs157728546",1894422,"A","G","synonymous_variant","LOW","Rv1668c",921,"p.Asp307Asp"]
["Rv1668c","rs157710478",1900021,"C","T","upstream_gene_variant","MODIFIER","Rv1668c",-4679]
["Rv1678","rs157710499",1903173,"C","T","synonymous_variant","LOW","Rv1678",777,"p.Ile259Ile"]
["Rv1686c","rs157710523",1912024,"C","A","missense_variant","MODERATE","Rv1686c",58,"p.Val20Phe"]
["Rv1687c","rs157710525",1912582,"G","A","synonymous_variant","LOW","Rv1687c",339,"p.Ala113Ala"]
["Rv1704c","rs157710585",1931179,"C","A","missense_variant","MODERATE","cycA",278,"p.Arg93Leu"]
["Rv1707","rs157710601",1935695,"T","G","missense_variant","MODERATE","Rv1707",814,"p.Ser272Ala"]
["Rv1707","NA",1936194,"G","A","missense_variant","MODERATE","Rv1707",1313,"p.Arg438Gln"]
["Rv1708","rs157710603",1936525,"G","A","missense_variant","MODERATE","Rv1708",166,"p.Ala56Thr"]
["Rv1730c","rs157710748",1956523,"C","A","synonymous_variant","LOW","Rv1730c",723,"p.Thr241Thr"]
["Rv1733c","rs157710766",1960284,"C","A","missense_variant","MODERATE","Rv1733c",204,"p.Gln68His"]
["Rv1733c","rs157728591",1965434,"A","G","upstream_gene_variant","MODIFIER","Rv1733c",-4947]
["Rv1739c","rs157710828",1967237,"C","A","missense_variant","MODERATE","Rv1739c",401,"p.Arg134Leu"]
["Rv1744c","NA",1971029,"C","T","missense_variant","MODERATE","Rv1744c",362,"p.Arg121Gln"]
["Rv1747","rs157710849",1975960,"G","T","synonymous_variant","LOW","Rv1747",2331,"p.Ser777Ser"]
["Rv1779c","NA",2013589,"C","T","synonymous_variant","LOW","Rv1779c",891,"p.Leu297Leu"]
["Rv1782","rs157711203",2017861,"G","A","missense_variant","MODERATE","eccB5",122,"p.Arg41His"]
["Rv1782","rs157711208",2019236,"T","G","synonymous_variant","LOW","eccB5",1497,"p.Pro499Pro"]
["Rv1783","NA",2021326,"A","G","synonymous_variant","LOW","eccC5",2070,"p.Ala690Ala"]
["Rv1783","NA",2021564,"G","A","missense_variant","MODERATE","eccC5",2308,"p.Val770Met"]
["Rv1783","rs157728675",2022868,"T","C","synonymous_variant","LOW","eccC5",3612,"p.Ser1204Ser"]
["Rv1792","NA",2030312,"C","T","upstream_gene_variant","MODIFIER","esxM",-35]
["Rv1793","NA",2030521,"T","C","upstream_gene_variant","MODIFIER","esxN",-173]
["Rv1795","NA",2032115,"A","G","upstream_gene_variant","MODIFIER","eccD5",-125]
["Rv1795","rs157711269",2033021,"G","A","missense_variant","MODERATE","eccD5",782,"p.Gly261Asp"]
["Rv1819c","rs157711428",2062922,"T","C","missense_variant","MODERATE","bacA",1807,"p.Ile603Val"]
["Rv1842c","rs157711600",2090776,"A","G","missense_variant","MODERATE","Rv1842c",1310,"p.Leu437Ser"]
["Rv1859","rs157711723",2107511,"C","T","missense_variant","MODERATE","modC",938,"p.Thr313Met"]
["Rv1860","rs157711725",2108141,"T","C","missense_variant","MODERATE","apa",406,"p.Phe136Leu"]
["Rv1888c","NA",2137903,"G","A","synonymous_variant","LOW","Rv1888c",177,"p.Gly59Gly"]
["Rv1899c","rs157728773",2145878,"A","G","missense_variant","MODERATE","lppD",368,"p.Leu123Pro"]
["Rv1910c","rs157712014",2156868,"G","T","synonymous_variant","LOW","Rv1910c",432,"p.Gly144Gly"]
["Rv1910c","NA",2156922,"A","T","synonymous_variant","LOW","Rv1910c",378,"p.Thr126Thr"]
["Rv1920","rs157712085",2172012,"G","C","missense_variant","MODERATE","Rv1920",390,"p.Met130Ile"]
["Rv1922","NA",2174586,"C","A","synonymous_variant","LOW","Rv1922",520,"p.Arg174Arg"]
["Rv1921c","rs157712109",2177073,"T","C","upstream_gene_variant","MODIFIER","lppF",-3278]
["Rv1946c","NA",2197669,"C","T","missense_variant","MODERATE","lppG",292,"p.Ala98Thr"]
["Rv1979c","rs157712364",2222308,"T","C","missense_variant","MODERATE","Rv1979c",857,"p.Asp286Gly"]
["Rv1980c","rs157712392",2228967,"A","G","upstream_gene_variant","MODIFIER","mpt64",-4938]
["Rv1984c","rs157712406",2231486,"A","G","upstream_gene_variant","MODIFIER","cfp21",-2925]
["Rv1997","rs157712473",2241742,"A","G","synonymous_variant","LOW","ctpF",1584,"p.Pro528Pro"]
["Rv1999c","rs157712487",2244343,"G","T","synonymous_variant","LOW","Rv1999c",796,"p.Arg266Arg"]
["Rv2037c","rs157728885",2282787,"C","T","missense_variant","MODERATE","Rv2037c",935,"p.Cys312Tyr"]
["Rv2039c","rs157712808",2285251,"C","A","missense_variant","MODERATE","Rv2039c",391,"p.Val131Phe"]
["Rv2041c","rs157712814",2287121,"A","G","synonymous_variant","LOW","Rv2041c",726,"p.Asp242Asp"]
["Rv2041c","NA",2287482,"G","A","missense_variant","MODERATE","Rv2041c",365,"p.Ala122Val"]
["Rv2046","NA",2291317,"T","C","missense_variant","MODERATE","lppI",49,"p.Ser17Pro"]
["Rv2080","rs157713176",2337373,"T","C","missense_variant","MODERATE","lppJ",68,"p.Val23Ala"]
["Rv2113","NA",2373248,"A","C","missense_variant","MODERATE","Rv2113",619,"p.Thr207Pro"]
["Rv2113","NA",2373763,"C","T","synonymous_variant","LOW","Rv2113",1134,"p.Tyr378Tyr"]
["Rv2115c","rs157713567",2379743,"C","G","upstream_gene_variant","MODIFIER","mpa",-3453]
["Rv2127","rs157713633",2388641,"G","A","missense_variant","MODERATE","ansP1",26,"p.Gly9Asp"]
["Rv2127","NA",2388745,"G","A","missense_variant","MODERATE","ansP1",130,"p.Gly44Ser"]
["Rv2153c","NA",2413131,"A","G","missense_variant","MODERATE","murG",221,"p.Leu74Pro"]
["Rv2153c","rs157713721",2413246,"C","A","missense_variant","MODERATE","murG",106,"p.Val36Leu"]
["Rv2155c","rs157713728",2415351,"C","A","synonymous_variant","LOW","murD",1044,"p.Val348Val"]
["Rv2155c","rs157729001",2415656,"G","C","missense_variant","MODERATE","murD",739,"p.Arg247Gly"]
["Rv2158c","rs157713745",2419142,"A","G","synonymous_variant","LOW","murE",1467,"p.Val489Val"]
["Rv2158c","rs157729002",2424864,"A","G","upstream_gene_variant","MODIFIER","murE",-4256]
["Rv2158c","rs157713786",2424925,"A","G","upstream_gene_variant","MODIFIER","murE",-4317]
["Rv2158c","NA",2424954,"A","C","upstream_gene_variant","MODIFIER","murE",-4346]
["Rv2163c","rs157713789",2425471,"T","C","synonymous_variant","LOW","pbpB",1617,"p.Arg539Arg"]
["Rv2174","rs157713824",2437259,"G","T","missense_variant","MODERATE","mptA",1351,"p.Ala451Ser"]
["Rv2180c","NA",2442749,"G","T","missense_variant","MODERATE","Rv2180c",466,"p.Pro156Thr"]
["Rv2180c","rs157713879",2447539,"A","G","upstream_gene_variant","MODIFIER","Rv2180c",-4325]
["Rv2197c","rs157729017",2461545,"C","A","missense_variant","MODERATE","Rv2197c",604,"p.Ala202Ser"]
["Rv2198c","rs157729022",2462871,"G","A","synonymous_variant","LOW","mmpS3",177,"p.Ala59Ala"]
["Rv2203","NA",2468521,"C","T","synonymous_variant","LOW","Rv2203",291,"p.Val97Val"]
["Rv2219","NA",2486454,"T","C","missense_variant","MODERATE","Rv2219",220,"p.Phe74Leu"]
["Rv2219A","NA",2489316,"A","G","upstream_gene_variant","MODIFIER","Rv2219A",-1900]
["Rv2224c","rs157714055",2495500,"T","C","synonymous_variant","LOW","caeA",1524,"p.Leu508Leu"]
["Rv2254c","NA",2528773,"G","A","missense_variant","MODERATE","Rv2254c",203,"p.Ala68Val"]
["Rv2265","rs157714199",2539620,"G","A","synonymous_variant","LOW","Rv2265",921,"p.Val307Val"]
["Rv2290","rs157714282",2562783,"T","C","missense_variant","MODERATE","lppO",185,"p.Val62Ala"]
["Rv2316","rs157714419",2589216,"G","C","missense_variant","MODERATE","uspA",379,"p.Val127Leu"]
["Rv2318","NA",2591577,"C","G","missense_variant","MODERATE","uspC",1060,"p.Leu354Val"]
["Rv2326c","rs157714459",2598400,"A","G","synonymous_variant","LOW","Rv2326c",1548,"p.Asn516Asn"]
["Rv2329c","rs157714472",2602184,"G","C","synonymous_variant","LOW","narK1",1278,"p.Ala426Ala"]
["Rv2333c","NA",2606813,"G","T","missense_variant","MODERATE","stp",1509,"p.His503Gln"]
["Rv2333c","rs157714490",2608117,"C","A","missense_variant","MODERATE","stp",205,"p.Asp69Tyr"]
["Rv2330c","rs157714492",2608488,"T","C","upstream_gene_variant","MODIFIER","lppP",-4266]
["Rv2339","NA",2614823,"C","T","missense_variant","MODERATE","mmpL9",131,"p.Ala44Val"]
["Rv2339","NA",2617173,"G","A","stop_gained","HIGH","mmpL9",2481,"p.Trp827*"]
["Rv2346c","NA",2625924,"T","C","synonymous_variant","LOW","esxO",249,"p.Ala83Ala"]
["Rv2395","rs157714779",2691713,"T","C","missense_variant","MODERATE","Rv2395",1642,"p.Ser548Pro"]
["Rv2398c","rs157714815",2695378,"C","G","missense_variant","MODERATE","cysW",422,"p.Gly141Ala"]
["Rv2403c","NA",2700912,"C","G","missense_variant","MODERATE","lppR",379,"p.Val127Leu"]
["Rv2443","NA",2741758,"G","T","synonymous_variant","LOW","dctA",1050,"p.Leu350Leu"]
["Rv2450c","rs157729140",2751804,"C","T","missense_variant","MODERATE","rpfE",377,"p.Arg126Gln"]
["Rv2459","NA",2761018,"G","A","missense_variant","MODERATE","Rv2459",165,"p.Met55Ile"]
["Rv2462c","rs157715150",2764939,"G","A","missense_variant","MODERATE","tig",353,"p.Pro118Leu"]
["Rv2477c","NA",2782927,"T","C","synonymous_variant","LOW","Rv2477c",1116,"p.Thr372Thr"]
["Rv2507","NA",2822974,"C","T","synonymous_variant","LOW","Rv2507",537,"p.Pro179Pro"]
["Rv2508c","rs157729161",2827984,"G","T","upstream_gene_variant","MODIFIER","Rv2508c",-3391]
["Rv2508c","rs157729162",2828019,"T","C","upstream_gene_variant","MODIFIER","Rv2508c",-3426]
["Rv2560","rs157716187",2880702,"G","C","missense_variant","MODERATE","Rv2560",628,"p.Val210Leu"]
["Rv2585c","rs157729264",2911293,"C","G","missense_variant","MODERATE","Rv2585c",1385,"p.Cys462Ser"]
["Rv2585c","rs157716327",2912294,"T","G","synonymous_variant","LOW","Rv2585c",384,"p.Ala128Ala"]
["Rv2585c","NA",2912516,"G","A","synonymous_variant","LOW","Rv2585c",162,"p.Thr54Thr"]
["Rv2586c","NA",2912712,"T","G","missense_variant","MODERATE","secF",1300,"p.Thr434Pro"]
["Rv2586c","rs157716333",2913087,"C","T","missense_variant","MODERATE","secF",925,"p.Ala309Thr"]
["Rv2599","rs157716385",2927511,"G","T","missense_variant","MODERATE","Rv2599",35,"p.Ser12Ile"]
["Rv2643","NA",2968273,"T","C","missense_variant","MODERATE","arsC",1364,"p.Val455Ala"]
["Rv2639c","rs157716543",2968468,"G","C","upstream_gene_variant","MODIFIER","Rv2639c",-3110]
["Rv2668","rs157716833",2984740,"A","G","missense_variant","MODERATE","Rv2668",8,"p.His3Arg"]
["Rv2668","NA",2984932,"G","C","missense_variant","MODERATE","Rv2668",200,"p.Gly67Ala"]
["Rv2668","rs157716836",2985216,"G","A","missense_variant","MODERATE","Rv2668",484,"p.Glu162Lys"]
["Rv2685","rs157716910",3003115,"C","G","missense_variant","MODERATE","arsB1",1133,"p.Ala378Gly"]
["Rv2688c","rs157716936",3005185,"G","T","missense_variant","MODERATE","Rv2688c",466,"p.Pro156Thr"]
["Rv2690c","rs157716952",3007238,"A","G","stop_lost&splice_region_variant","HIGH","Rv2690c",1972,"p.Ter658Argext*?"]
["Rv2691","rs157716960",3009692,"A","G","missense_variant","MODERATE","ceoB",349,"p.Thr117Ala"]
["Rv2692","rs157716967",3010420,"A","G","missense_variant","MODERATE","ceoC",397,"p.Ile133Val"]
["Rv2709","NA",3021942,"C","G","missense_variant","MODERATE","Rv2709",104,"p.Thr35Ser"]
["Rv2719c","rs157717062",3031168,"A","G","missense_variant","MODERATE","Rv2719c",370,"p.Tyr124His"]
["Rv2721c","rs157717094",3037377,"T","C","upstream_gene_variant","MODIFIER","Rv2721c",-2758]
["Rv2729c","NA",3041679,"G","A","missense_variant","MODERATE","Rv2729c",797,"p.Ala266Val"]
["Rv2729c","rs157717105",3041871,"G","T","missense_variant","MODERATE","Rv2729c",605,"p.Ala202Glu"]
["Rv2729c","NA",3042353,"G","C","missense_variant","MODERATE","Rv2729c",123,"p.Phe41Leu"]
["Rv2732c","NA",3044864,"C","T","synonymous_variant","LOW","Rv2732c",126,"p.Val42Val"]
["Rv2796c","rs157717752",3105144,"C","A","missense_variant","MODERATE","lppV",476,"p.Cys159Phe"]
["Rv2833c","NA",3139964,"G","A","missense_variant","MODERATE","ugpB",521,"p.Pro174Leu"]
["Rv2833c","NA",3140153,"C","A","missense_variant","MODERATE","ugpB",332,"p.Ser111Ile"]
["Rv2846c","NA",3154587,"T","C","synonymous_variant","LOW","efpA",45,"p.Thr15Thr"]
["Rv2846c","NA",3154588,"G","C","missense_variant","MODERATE","efpA",44,"p.Thr15Arg"]
["Rv2869c","rs157719078",3180988,"C","A","missense_variant","MODERATE","rip",775,"p.Val259Phe"]
["Rv2876","rs157719100",3187792,"T","C","missense_variant","MODERATE","Rv2876",130,"p.Trp44Arg"]
["Rv2877c","rs157719104",3188769,"A","G","missense_variant","MODERATE","Rv2877c",103,"p.Tyr35His"]
["Rv2878c","rs157719106",3189242,"A","G","synonymous_variant","LOW","mpt53",156,"p.Ala52Ala"]
["Rv2903c","NA",3213089,"C","T","missense_variant","MODERATE","lepB",766,"p.Asp256Asn"]
["Rv2916c","rs157719238",3226181,"A","C","synonymous_variant","LOW","ffh",105,"p.Arg35Arg"]
["Rv2922c","NA",3235715,"G","C","missense_variant","MODERATE","smc",2092,"p.Arg698Gly"]
["Rv2922c","rs157719276",3236716,"A","C","missense_variant","MODERATE","smc",1091,"p.Leu364Arg"]
["Rv2936","rs157729723",3273138,"C","G","missense_variant","MODERATE","drrA",925,"p.His309Asp"]
["Rv2937","NA",3273859,"C","T","synonymous_variant","LOW","drrB",654,"p.Leu218Leu"]
["Rv2942","rs157719470",3286107,"C","A","synonymous_variant","LOW","mmpL7",1038,"p.Val346Val"]
["Rv2999","rs157719761",3358235,"A","T","missense_variant","MODERATE","lppY",634,"p.Met212Leu"]
["Rv3006","NA",3365364,"G","A","missense_variant","MODERATE","lppZ",656,"p.Gly219Asp"]
["Rv3036c","NA",3396954,"T","C","missense_variant","MODERATE","TB22.2",188,"p.Gln63Arg"]
["Rv3041c","rs157729781",3401871,"A","G","synonymous_variant","LOW","Rv3041c",48,"p.Ala16Ala"]
["Rv3041c","NA",3406257,"G","A","upstream_gene_variant","MODIFIER","Rv3041c",-4339]
["Rv3101c","NA",3470168,"T","C","missense_variant","MODERATE","ftsX",512,"p.Asn171Ser"]
["Rv3104c","NA",3477603,"C","T","upstream_gene_variant","MODIFIER","Rv3104c",-4825]
["Rv3193c","rs157721129",3560645,"C","T","missense_variant","MODERATE","Rv3193c",2528,"p.Arg843Gln"]
["Rv3197","rs157721154",3568004,"C","A","synonymous_variant","LOW","Rv3197",981,"p.Arg327Arg"]
["Rv3200c","rs157721178",3573636,"T","C","missense_variant","MODERATE","Rv3200c",34,"p.Asn12Asp"]
["Rv3213c","rs157721252",3591063,"T","C","missense_variant","MODERATE","Rv3213c",430,"p.Lys144Glu"]
["Rv3239c","rs157721587",3614982,"T","C","synonymous_variant","LOW","Rv3239c",2622,"p.Leu874Leu"]
["Rv3239c","rs157721618",3621423,"A","G","upstream_gene_variant","MODIFIER","Rv3239c",-3820]
["Rv3244c","NA",3623372,"C","G","synonymous_variant","LOW","lpqB",1539,"p.Pro513Pro"]
["Rv3244c","NA",3623730,"G","A","missense_variant","MODERATE","lpqB",1181,"p.Ser394Leu"]
["Rv3244c","rs157721627",3624350,"C","A","synonymous_variant","LOW","lpqB",561,"p.Ala187Ala"]
["Rv3244c","rs157721628",3624486,"T","C","missense_variant","MODERATE","lpqB",425,"p.Asp142Gly"]
["Rv3244c","NA",3624593,"C","T","synonymous_variant","LOW","lpqB",318,"p.Val106Val"]
["Rv3244c","NA",3624710,"C","T","synonymous_variant","LOW","lpqB",201,"p.Leu67Leu"]
["Rv3277","NA",3660692,"C","T","missense_variant","MODERATE","Rv3277",815,"p.Ser272Leu"]
["Rv3289c","rs157722098",3670040,"C","T","synonymous_variant","LOW","Rv3289c",372,"p.Ala124Ala"]
["Rv3310","rs157722215",3697708,"A","G","missense_variant","MODERATE","sapM",511,"p.Thr171Ala"]
["Rv3330","NA",3715899,"G","A","synonymous_variant","LOW","dacB1",123,"p.Val41Val"]
["Rv3331","rs157730022",3718357,"C","T","missense_variant","MODERATE","sugI",1268,"p.Pro423Leu"]
["Rv3335c","rs157722310",3721806,"G","C","synonymous_variant","LOW","Rv3335c",795,"p.Gly265Gly"]
["Rv3402c","rs157723364",3820839,"G","C","stop_gained","HIGH","Rv3402c",1053,"p.Tyr351*"]
["Rv3437","NA",3857161,"T","C","missense_variant","MODERATE","Rv3437",251,"p.Leu84Pro"]
["Rv3434c","NA",3858247,"C","T","upstream_gene_variant","MODIFIER","Rv3434c",-4319]
["Rv3447c","rs157723618",3864995,"T","C","missense_variant","MODERATE","eccC4",3244,"p.Ser1082Gly"]
["Rv3450c","rs157723672",3871246,"T","C","synonymous_variant","LOW","eccB4",1251,"p.Gly417Gly"]
["Rv3454","NA",3875386,"G","A","missense_variant","MODERATE","Rv3454",565,"p.Val189Ile"]
["Rv3476c","rs157723888",3892671,"A","G","synonymous_variant","LOW","kgtP",1050,"p.Val350Val"]
["Rv3476c","rs157723889",3893290,"G","A","missense_variant","MODERATE","kgtP",431,"p.Ala144Val"]
["Rv3476c","rs157723890",3893480,"G","A","missense_variant","MODERATE","kgtP",241,"p.Leu81Phe"]
["Rv3476c","NA",3895819,"G","A","upstream_gene_variant","MODIFIER","kgtP",-2099]
["Rv3479","rs157730225",3896340,"T","G","missense_variant","MODERATE","Rv3479",521,"p.Leu174Arg"]
["Rv3479","rs157723908",3898408,"A","G","synonymous_variant","LOW","Rv3479",2589,"p.Ala863Ala"]
["Rv3479","rs157723917",3898869,"C","A","missense_variant","MODERATE","Rv3479",3050,"p.Thr1017Asn"]
["Rv3576","NA",4018709,"G","A","missense_variant","MODERATE","lppH",352,"p.Asp118Asn"]
["Rv3578","NA",4021093,"G","T","missense_variant","MODERATE","arsB2",952,"p.Ala318Ser"]
["Rv3593","rs157724605",4034827,"C","T","missense_variant","MODERATE","lpqF",476,"p.Ala159Val"]
["Rv3593","NA",4034908,"A","G","missense_variant","MODERATE","lpqF",557,"p.Asn186Ser"]
["Rv3593","NA",4034981,"G","A","synonymous_variant","LOW","lpqF",630,"p.Gln210Gln"]
["Rv3604c","NA",4047039,"A","C","missense_variant","MODERATE","Rv3604c",458,"p.Val153Gly"]
["Rv3604c","NA",4047443,"A","C","synonymous_variant","LOW","Rv3604c",54,"p.Gly18Gly"]
["Rv3605c","NA",4047993,"G","A","synonymous_variant","LOW","Rv3605c",189,"p.Gly63Gly"]
["Rv3614c","rs157724806",4054637,"A","G","synonymous_variant","LOW","espD",60,"p.Gly20Gly"]
["Rv3615c","NA",4054869,"C","T","synonymous_variant","LOW","espC",255,"p.Lys85Lys"]
["Rv3616c","rs157724808",4055801,"G","A","missense_variant","MODERATE","espA",575,"p.Thr192Ile"]
["Rv3610c","rs157724814",4056416,"C","A","upstream_gene_variant","MODIFIER","ftsH",-3533]
["Rv3610c","NA",4056433,"A","G","upstream_gene_variant","MODIFIER","ftsH",-3550]
["Rv3630","rs157730350",4069292,"G","A","missense_variant","MODERATE","Rv3630",118,"p.Ala40Thr"]
["Rv3645","NA",4083511,"C","T","synonymous_variant","LOW","Rv3645",705,"p.Ile235Ile"]
["Rv3658c","NA",4096586,"G","A","synonymous_variant","LOW","Rv3658c",354,"p.Ala118Ala"]
["Rv3657c","rs157725003",4100975,"T","C","upstream_gene_variant","MODIFIER","Rv3657c",-4860]
["Rv3666c","NA",4105733,"T","C","missense_variant","MODERATE","dppA",1352,"p.Glu451Gly"]
["Rv3666c","rs157725012",4105757,"C","T","missense_variant","MODERATE","dppA",1328,"p.Arg443Gln"]
["Rv3666c","rs157725016",4107074,"T","C","missense_variant","MODERATE","dppA",11,"p.Gln4Arg"]
["Rv3669","rs157725034",4111303,"G","C","synonymous_variant","LOW","Rv3669",477,"p.Val159Val"]
["Rv3679","rs157725074",4119246,"T","C","synonymous_variant","LOW","Rv3679",471,"p.Asp157Asp"]
["Rv3694c","NA",4136554,"G","A","synonymous_variant","LOW","Rv3694c",561,"p.Leu187Leu"]
["Rv3724B","NA",4169830,"G","A","synonymous_variant","LOW","cut5b",225,"p.Val75Val"]
["Rv3728","NA",4176262,"G","A","missense_variant","MODERATE","Rv3728",1390,"p.Gly464Arg"]
["Rv3737","rs157730399",4187817,"A","G","missense_variant","MODERATE","Rv3737",119,"p.Asp40Gly"]
["Rv3743c","rs157725470",4195182,"G","A","synonymous_variant","LOW","ctpJ",192,"p.Cys64Cys"]
["Rv3783","NA",4229470,"T","C","synonymous_variant","LOW","rfbD",213,"p.Tyr71Tyr"]
["Rv3793","rs157725806",4240671,"C","T","missense_variant","MODERATE","embC",809,"p.Thr270Ile"]
["Rv3793","rs157725813",4242643,"C","T","synonymous_variant","LOW","embC",2781,"p.Arg927Arg"]
["Rv3793","NA",4242970,"C","T","synonymous_variant","LOW","embC",3108,"p.Thr1036Thr"]
["Rv3794","rs157725823",4244220,"C","T","synonymous_variant","LOW","embA",988,"p.Leu330Leu"]
["Rv3795","NA",4246551,"A","G","missense_variant","MODERATE","embB",38,"p.Asn13Ser"]
["Rv3795","rs157725834",4246864,"C","T","synonymous_variant","LOW","embB",351,"p.Val117Val"]
["Rv3795","rs157725837",4247646,"A","C","missense_variant","MODERATE","embB",1133,"p.Glu378Ala"]
["Rv3795","NA",4254347,"T","A","downstream_gene_variant","MODIFIER","embB","*4537"]
["Rv3805c","NA",4267858,"T","C","missense_variant","MODERATE","aftB",979,"p.Ile327Val"]
["Rv3806c","rs157725918",4269351,"G","A","synonymous_variant","LOW","ubiA",483,"p.Ala161Ala"]
["Rv3806c","rs157725919",4269387,"T","G","missense_variant","MODERATE","ubiA",447,"p.Glu149Asp"]
["Rv3806c","rs157725922",4269606,"A","G","synonymous_variant","LOW","ubiA",228,"p.Arg76Arg"]
["Rv3809c","NA",4278106,"G","A","upstream_gene_variant","MODIFIER","glf",-4631]
["Rv3821","NA",4286288,"G","A","missense_variant","MODERATE","Rv3821",316,"p.Asp106Asn"]
["Rv3821","NA",4286330,"G","A","missense_variant","MODERATE","Rv3821",358,"p.Ala120Thr"]
["Rv3823c","rs157726008",4289953,"A","G","missense_variant","MODERATE","mmpL8",1577,"p.Val526Ala"]
["Rv3823c","rs157726011",4290564,"G","T","synonymous_variant","LOW","mmpL8",966,"p.Ala322Ala"]
["Rv3823c","rs157726012",4290827,"C","G","missense_variant","MODERATE","mmpL8",703,"p.Gly235Arg"]
["Rv3843c","rs157730485",4316322,"C","T","missense_variant","MODERATE","Rv3843c",275,"p.Arg92His"]
["Rv3843c","rs157726171",4316566,"C","G","missense_variant","MODERATE","Rv3843c",31,"p.Gly11Arg"]
["Rv3848","NA",4322905,"G","A","missense_variant","MODERATE","Rv3848",580,"p.Val194Ile"]
["Rv3848","rs157726199",4323006,"G","A","synonymous_variant","LOW","Rv3848",681,"p.Ala227Ala"]
["Rv3868","NA",4344041,"C","T","missense_variant","MODERATE","eccA1",728,"p.Ala243Val"]
["Rv3877","rs157726388",4356110,"G","C","synonymous_variant","LOW","eccD1",1104,"p.Leu368Leu"]
["Rv3878","NA",4356825,"G","A","missense_variant","MODERATE","espJ",133,"p.Glu45Lys"]
["Rv3878","rs157726397",4357421,"G","A","synonymous_variant","LOW","espJ",729,"p.Gly243Gly"]
["Rv3879c","rs157726398",4357597,"C","G","missense_variant","MODERATE","espK",2186,"p.Cys729Ser"]
["Rv3884c","rs157730526",4366195,"T","C","missense_variant","MODERATE","eccA2",644,"p.Glu215Gly"]
["Rv3884c","rs157726456",4366272,"G","C","synonymous_variant","LOW","eccA2",567,"p.Ala189Ala"]
["Rv3885c","rs157726466",4367649,"A","G","synonymous_variant","LOW","eccE2",873,"p.Tyr291Tyr"]
["Rv3885c","NA",4368124,"A","G","missense_variant","MODERATE","eccE2",398,"p.Leu133Pro"]
["Rv3891c","rs157726509",4374228,"T","C","missense_variant","MODERATE","esxD",145,"p.Thr49Ala"]
["Rv3894c","NA",4379208,"C","T","synonymous_variant","LOW","eccC2",1245,"p.Arg415Arg"]
["Rv3894c","rs157726545",4379680,"C","G","missense_variant","MODERATE","eccC2",773,"p.Arg258Pro"]
["Rv3895c","NA",4380880,"T","C","missense_variant","MODERATE","eccB2",1061,"p.Asp354Gly"]
["Rv3901c","NA",4386753,"A","C","missense_variant","MODERATE","Rv3901c",62,"p.Leu21Trp"]
["Rv3904c","NA",4390466,"T","C","missense_variant","MODERATE","esxE",244,"p.Met82Val"]
["Rv3905c","NA",4390859,"C","T","stop_gained","HIGH","esxF",173,"p.Trp58*"]
["Rv3910","NA",4398035,"T","C","missense_variant","MODERATE","Rv3910",1439,"p.Val480Ala"]
["Rv3919c","rs157726868",4407588,"T","C","synonymous_variant","LOW","gid",615,"p.Ala205Ala"]

{"sheet":"Conserved_hypo","index":2,"n_rows":405,"n_cols":10,"rows_kept":405,"flags":["formulas_cached_only"]}
["Rv_locus","rsid","Chr_po","Ref","Altq","Type","Effect","Gene","Gene_pos","aa_change"]
["Rv0021c","rs157698125",26053,"C","G","missense_variant","MODERATE","Rv0021c",829,"p.Ala277Pro"]
["Rv0025","NA",29462,"C","T","missense_variant","MODERATE","Rv0025",218,"p.Pro73Leu"]
["Rv0026","NA",29999,"A","C","missense_variant","MODERATE","Rv0026",278,"p.Gln93Pro"]
["Rv0026","NA",30756,"G","A","synonymous_variant","LOW","Rv0026",1035,"p.Lys345Lys"]
["Rv0026","rs157698188",31057,"C","G","missense_variant","MODERATE","Rv0026",1336,"p.Gln446Glu"]
["Rv0029","NA",32624,"C","A","missense_variant","MODERATE","Rv0029",568,"p.His190Asn"]
["Rv0034","rs157698278",37031,"C","G","synonymous_variant","LOW","Rv0034",165,"p.Ala55Ala"]
["Rv0036c","rs157698296",39758,"A","G","synonymous_variant","LOW","Rv0036c",72,"p.His24His"]
["Rv0059","NA",63039,"C","T","upstream_gene_variant","MODIFIER","Rv0059",-161]
["Rv0059","NA",63059,"C","G","upstream_gene_variant","MODIFIER","Rv0059",-141]
["Rv0080","rs157698555",89200,"G","T","missense_variant","MODERATE","Rv0080",179,"p.Gly60Val"]
["Rv0104","NA",122614,"C","T","missense_variant","MODERATE","Rv0104",298,"p.Arg100Trp"]
["Rv0104","rs157699221",123520,"T","C","missense_variant","MODERATE","Rv0104",1204,"p.Tyr402His"]
["Rv0192","rs157700267",223942,"T","C","missense_variant","MODERATE","Rv0192",379,"p.Ser127Pro"]
["Rv0193c","rs157700280",225323,"T","C","missense_variant","MODERATE","Rv0193c",1249,"p.Lys417Glu"]
["Rv0209","rs157700592",249522,"T","C","missense_variant","MODERATE","Rv0209",485,"p.Val162Ala"]
["Rv0210","rs157700600",251575,"G","A","missense_variant","MODERATE","Rv0210",1456,"p.Ala486Thr"]
["Rv0257","rs157700865",309765,"C","T","stop_gained","HIGH","Rv0257",67,"p.Arg23*"]
["Rv0259c","rs157700873",310973,"G","A","missense_variant","MODERATE","Rv0259c",545,"p.Ala182Val"]
["Rv0272c","NA",329218,"G","A","missense_variant","MODERATE","Rv0272c",491,"p.Pro164Leu"]
["Rv0293c","NA",361161,"T","C","upstream_gene_variant","MODIFIER","Rv0293c",-3097]
["Rv0307c","rs157701236",376774,"T","C","synonymous_variant","LOW","Rv0307c",282,"p.Ala94Ala"]
["Rv0312","rs157701259",381030,"A","G","missense_variant","MODERATE","Rv0312",475,"p.Ser159Gly"]
["Rv0312","rs157701263",382243,"C","T","missense_variant","MODERATE","Rv0312",1688,"p.Pro563Leu"]
["Rv0310c","rs157701264",382489,"C","T","upstream_gene_variant","MODIFIER","Rv0310c",-3341]
["Rv0323c","rs157727344",390828,"T","C","missense_variant","MODERATE","Rv0323c",424,"p.Ser142Gly"]
["Rv0329c","NA",394935,"C","G","missense_variant","MODERATE","Rv0329c",386,"p.Trp129Ser"]
["Rv0332","NA",398034,"A","G","missense_variant","MODERATE","Rv0332",593,"p.Glu198Gly"]
["Rv0365c","NA",443559,"C","A","synonymous_variant","LOW","Rv0365c",639,"p.Val213Val"]
["Rv0368c","NA",445415,"C","T","missense_variant","MODERATE","Rv0368c",1111,"p.Gly371Ser"]
["Rv0368c","rs157701715",445780,"C","T","missense_variant","MODERATE","Rv0368c",746,"p.Arg249His"]
["Rv0376c","rs157701774",454295,"T","C","synonymous_variant","LOW","Rv0376c",78,"p.Pro26Pro"]
["Rv0381c","rs157727448",457452,"T","G","synonymous_variant","LOW","Rv0381c",372,"p.Thr124Thr"]
["Rv0395","rs157727475",475178,"T","C","missense_variant","MODERATE","Rv0395",239,"p.Val80Ala"]
["Rv0433","NA",521319,"T","C","synonymous_variant","LOW","Rv0433",996,"p.Cys332Cys"]
["Rv0434","rs157702370",522081,"A","G","missense_variant","MODERATE","Rv0434",568,"p.Thr190Ala"]
["Rv0441c","rs157702454",534427,"T","A","upstream_gene_variant","MODIFIER","Rv0441c",-3703]
["Rv0459","rs157702517",551525,"A","C","synonymous_variant","LOW","Rv0459",328,"p.Arg110Arg"]
["Rv0464c","NA",557299,"G","A","upstream_gene_variant","MODIFIER","Rv0464c",-2414]
["Rv0493c","NA",583818,"C","T","synonymous_variant","LOW","Rv0493c",873,"p.Gln291Gln"]
["Rv0493c","rs157702636",584171,"T","C","missense_variant","MODERATE","Rv0493c",520,"p.Ser174Gly"]
["Rv0493c","rs157727607",584511,"G","T","synonymous_variant","LOW","Rv0493c",180,"p.Thr60Thr"]
["Rv0552","rs157702904",644439,"C","T","synonymous_variant","LOW","Rv0552",1551,"p.Ala517Ala"]
["Rv0566c","rs157702977",657578,"A","G","synonymous_variant","LOW","Rv0566c",462,"p.Asp154Asp"]
["Rv0572c","rs157703001",665293,"A","G","missense_variant","MODERATE","Rv0572c",91,"p.Phe31Leu"]
["Rv0574c","NA",668383,"A","C","missense_variant","MODERATE","Rv0574c",12,"p.Asn4Lys"]
["Rv0610c","rs157727666",705602,"T","C","missense_variant","MODERATE","Rv0610c",308,"p.Asn103Ser"]
["Rv0628c","NA",719658,"C","T","synonymous_variant","LOW","Rv0628c",255,"p.Val85Val"]
["Rv0647c","NA",741741,"C","T","missense_variant","MODERATE","Rv0647c",877,"p.Ala293Thr"]
["Rv0698","NA",798815,"C","T","upstream_gene_variant","MODIFIER","Rv0698",-18]
["Rv0739","NA",831566,"A","G","missense_variant","MODERATE","Rv0739",712,"p.Met238Val"]
["Rv0743c","NA",835012,"A","T","upstream_gene_variant","MODIFIER","Rv0743c",-569]
["Rv0749A","rs157703992",841764,"G","C","synonymous_variant","LOW","Rv0749A",111,"p.Thr37Thr"]
["Rv0756c","rs157704204",851104,"C","T","synonymous_variant","LOW","Rv0756c",363,"p.Ala121Ala"]
["Rv0760c","NA",854498,"G","A","synonymous_variant","LOW","Rv0760c",189,"p.Phe63Phe"]
["Rv0787","rs157704355",882257,"T","C","missense_variant","MODERATE","Rv0787",799,"p.Tyr267His"]
["Rv0801","rs157704520",894888,"T","C","synonymous_variant","LOW","Rv0801",258,"p.Ser86Ser"]
["Rv0822c","rs157704604",916046,"T","G","missense_variant","MODERATE","Rv0822c",266,"p.His89Pro"]
["Rv0826","NA",919831,"C","T","synonymous_variant","LOW","Rv0826",198,"p.Arg66Arg"]
["Rv0826","NA",920514,"G","A","missense_variant","MODERATE","Rv0826",881,"p.Arg294Gln"]
["Rv0825c","NA",924300,"G","A","upstream_gene_variant","MODIFIER","Rv0825c",-4747]
["Rv0836c","rs157727851",932280,"T","C","stop_lost&splice_region_variant","HIGH","Rv0836c",653,"p.Ter218Trpext*?"]
["Rv0837c","rs157704669",933699,"G","T","synonymous_variant","LOW","Rv0837c",333,"p.Gly111Gly"]
["Rv0862c","rs157704814",960367,"A","G","missense_variant","MODERATE","Rv0862c",2246,"p.Leu749Ser"]
["Rv0874c","NA",973671,"G","A","synonymous_variant","LOW","Rv0874c",36,"p.Asp12Asp"]
["Rv0906","NA",1009717,"C","T","synonymous_variant","LOW","Rv0906",774,"p.Gly258Gly"]
["Rv0906","NA",1009957,"G","A","synonymous_variant","LOW","Rv0906",1014,"p.Leu338Leu"]
["Rv0909","rs157705432",1014815,"T","G","missense_variant","MODERATE","Rv0909",135,"p.His45Gln"]
["Rv0918","rs157705486",1024346,"A","G","missense_variant","MODERATE","Rv0918",136,"p.Ser46Gly"]
["Rv0923c","NA",1029936,"A","G","synonymous_variant","LOW","Rv0923c",642,"p.Arg214Arg"]
["Rv0964c","rs157705967",1076309,"G","T","missense_variant","MODERATE","Rv0964c",370,"p.Pro124Thr"]
["Rv0965c","NA",1076917,"C","T","missense_variant","MODERATE","Rv0965c",281,"p.Arg94His"]
["Rv0966c","rs157728002",1077280,"A","C","missense_variant","MODERATE","Rv0966c",556,"p.Trp186Gly"]
["Rv0966c","rs157706021",1077312,"A","G","missense_variant","MODERATE","Rv0966c",524,"p.Val175Ala"]
["Rv0976c","NA",1094413,"G","C","upstream_gene_variant","MODIFIER","Rv0976c",-4238]
["Rv0976c","NA",1094415,"C","T","upstream_gene_variant","MODIFIER","Rv0976c",-4240]
["Rv0990c","rs157728043",1107940,"A","C","missense_variant","MODERATE","Rv0990c",160,"p.Ser54Ala"]
["Rv0992c","rs157706189",1109163,"C","G","missense_variant","MODERATE","Rv0992c",9,"p.Met3Ile"]
["Rv1006","NA",1125316,"C","T","missense_variant","MODERATE","Rv1006",1603,"p.Pro535Ser"]
["Rv1012","rs157706271",1131300,"G","A","missense_variant","MODERATE","Rv1012",173,"p.Ser58Asn"]
["Rv1043c","NA",1166020,"C","A","missense_variant","MODERATE","Rv1043c",787,"p.Gly263Cys"]
["Rv1043c","NA",1166512,"C","T","missense_variant","MODERATE","Rv1043c",295,"p.Ala99Thr"]
["Rv1043c","NA",1170848,"G","A","upstream_gene_variant","MODIFIER","Rv1043c",-4042]
["Rv1048c","NA",1174782,"G","A","upstream_gene_variant","MODIFIER","Rv1048c",-2629]
["Rv1048c","rs157706459",1176753,"T","C","upstream_gene_variant","MODIFIER","Rv1048c",-4600]
["Rv1056","rs157706483",1178116,"T","C","synonymous_variant","LOW","Rv1056",489,"p.Thr163Thr"]
["Rv1051c","NA",1179141,"T","G","upstream_gene_variant","MODIFIER","Rv1051c",-4441]
["Rv1078","rs157706593",1203824,"T","C","missense_variant","MODERATE","pra",512,"p.Ile171Thr"]
["Rv1112","rs157706737",1238483,"G","A","missense_variant","MODERATE","Rv1112",229,"p.Val77Ile"]
["Rv1125","rs157706811",1248382,"A","G","missense_variant","MODERATE","Rv1125",301,"p.Ser101Gly"]
["Rv1125","rs157728106",1248936,"G","C","synonymous_variant","LOW","Rv1125",855,"p.Pro285Pro"]
["Rv1125","rs157706813",1248978,"T","C","synonymous_variant","LOW","Rv1125",897,"p.Ala299Ala"]
["Rv1154c","rs157706933",1281118,"T","C","missense_variant","MODERATE","Rv1154c",367,"p.Thr123Ala"]
["Rv1157c","rs157706977",1287112,"T","C","upstream_gene_variant","MODIFIER","Rv1157c",-2941]
["Rv1176c","rs157728126",1313338,"A","C","upstream_gene_variant","MODIFIER","Rv1176c",-4546]
["Rv1186c","rs157707156",1327890,"G","A","synonymous_variant","LOW","Rv1186c",1416,"p.Asp472Asp"]
["Rv1186c","rs157707160",1328687,"G","C","missense_variant","MODERATE","Rv1186c",619,"p.Pro207Ala"]
["Rv1194c","NA",1338831,"A","C","upstream_gene_variant","MODIFIER","Rv1194c",-318]
["Rv1194c","NA",1340640,"C","T","upstream_gene_variant","MODIFIER","Rv1194c",-2127]
["Rv1204c","rs157707301",1347173,"C","T","synonymous_variant","LOW","Rv1204c",1452,"p.Leu484Leu"]
["Rv1203c","rs157707313",1351172,"A","G","upstream_gene_variant","MODIFIER","Rv1203c",-4267]
["Rv1215c","rs157707348",1358940,"C","A","missense_variant","MODERATE","Rv1215c",505,"p.Ala169Ser"]
["Rv1225c","NA",1371606,"A","C","upstream_gene_variant","MODIFIER","Rv1225c",-2885]
["Rv1232c","rs157707439",1375724,"A","C","missense_variant","MODERATE","Rv1232c",445,"p.Cys149Gly"]
["Rv1251c","rs157707538",1396922,"T","C","synonymous_variant","LOW","Rv1251c",2319,"p.Thr773Thr"]
["Rv1251c","rs157707541",1397201,"A","G","synonymous_variant","LOW","Rv1251c",2040,"p.Asn680Asn"]
["Rv1262c","rs157707637",1410062,"G","C","missense_variant","MODERATE","Rv1262c",311,"p.Pro104Arg"]
["Rv1261c","rs157707652",1413148,"C","T","upstream_gene_variant","MODIFIER","Rv1261c",-3215]
["Rv1276c","NA",1425641,"T","A","missense_variant","MODERATE","Rv1276c",274,"p.Thr92Ser"]
["Rv1278","NA",1427476,"C","T","synonymous_variant","LOW","Rv1278",63,"p.Phe21Phe"]
["Rv1289","rs157707766",1442734,"C","G","upstream_gene_variant","MODIFIER","Rv1289",-33]
["Rv1301","NA",1458076,"T","G","synonymous_variant","LOW","Rv1301",519,"p.Gly173Gly"]
["Rv1301","rs157707846",1458144,"C","A","missense_variant","MODERATE","Rv1301",587,"p.Pro196Gln"]
["Rv1321","rs157707931",1484708,"A","C","missense_variant","MODERATE","Rv1321",430,"p.Ser144Arg"]
["Rv1339","rs157708179",1505973,"G","A","synonymous_variant","LOW","Rv1339",57,"p.Arg19Arg"]
["Rv1367c","rs157708312",1540141,"T","C","missense_variant","MODERATE","Rv1367c",505,"p.Ile169Val"]
["Rv1374c","rs157708333",1547125,"T","C","missense_variant","MODERATE","Rv1374c",406,"p.Thr136Ala"]
["Rv1375","rs157708341",1548087,"G","A","missense_variant","MODERATE","Rv1375",256,"p.Gly86Arg"]
["Rv1375","rs157708342",1548149,"G","A","synonymous_variant","LOW","Rv1375",318,"p.Pro106Pro"]
["Rv1375","NA",1548796,"G","C","missense_variant","MODERATE","Rv1375",965,"p.Arg322Pro"]
["Rv1376","NA",1549854,"G","C","missense_variant","MODERATE","Rv1376",707,"p.Arg236Pro"]
["Rv1378c","rs157728263",1552547,"G","A","missense_variant","MODERATE","Rv1378c",109,"p.Arg37Trp"]
["Rv1378c","NA",1552630,"C","T","missense_variant","MODERATE","Rv1378c",26,"p.Arg9His"]
["Rv1421","NA",1596734,"C","T","synonymous_variant","LOW","Rv1421",756,"p.Arg252Arg"]
["Rv1422","NA",1597137,"C","T","missense_variant","MODERATE","Rv1422",257,"p.Ala86Val"]
["Rv1461","NA",1647117,"T","C","synonymous_variant","LOW","Rv1461",129,"p.Gly43Gly"]
["Rv1462","rs157708921",1650072,"A","G","missense_variant","MODERATE","Rv1462",547,"p.Asn183Asp"]
["Rv1486c","rs157709014",1676290,"C","A","missense_variant","MODERATE","Rv1486c",594,"p.Lys198Asn"]
["Rv1498A","rs157709160",1690345,"A","G","start_lost","HIGH","Rv1498A",2,"p.Met1?"]
["Rv1501","rs157728366",1692141,"A","C","synonymous_variant","LOW","Rv1501",252,"p.Ile84Ile"]
["Rv1503c","rs157709196",1694199,"C","T","missense_variant","MODERATE","Rv1503c",346,"p.Glu116Lys"]
["Rv1504c","rs157709200",1694547,"A","C","stop_lost&splice_region_variant","HIGH","Rv1504c",598,"p.Ter200Gluext*?"]
["Rv1505c","rs157709205",1695674,"G","A","synonymous_variant","LOW","Rv1505c",273,"p.Tyr91Tyr"]
["Rv1518","NA",1710441,"C","A","missense_variant","MODERATE","Rv1518",798,"p.Ser266Arg"]
["Rv1518","NA",1710592,"A","C","missense_variant","MODERATE","Rv1518",949,"p.Met317Leu"]
["Rv1592c","rs157709688",1792777,"T","C","missense_variant","MODERATE","Rv1592c",964,"p.Ile322Val"]
["Rv1592c","rs157709689",1792778,"T","C","synonymous_variant","LOW","Rv1592c",963,"p.Glu321Glu"]
["Rv1593c","NA",1794234,"G","A","synonymous_variant","LOW","Rv1593c",474,"p.Ala158Ala"]
["Rv1597","rs157709723",1798355,"G","A","missense_variant","MODERATE","Rv1597",62,"p.Gly21Asp"]
["Rv1628c","NA",1830295,"G","A","synonymous_variant","LOW","Rv1628c",267,"p.Phe89Phe"]
["Rv1632c","NA",1836857,"G","T","upstream_gene_variant","MODIFIER","Rv1632c",-27]
["Rv1676","rs157710485",1901493,"T","C","synonymous_variant","LOW","Rv1676",447,"p.Ser149Ser"]
["Rv1682","rs157710506",1906336,"A","G","upstream_gene_variant","MODIFIER","Rv1682",-67]
["Rv1682","rs157710510",1907296,"G","C","synonymous_variant","LOW","Rv1682",894,"p.Ala298Ala"]
["Rv1691","rs157710538",1916137,"A","G","synonymous_variant","LOW","Rv1691",189,"p.Leu63Leu"]
["Rv1716","rs157710647",1944107,"A","G","missense_variant","MODERATE","Rv1716",532,"p.Ser178Gly"]
["Rv1716","rs157728575",1944402,"T","C","missense_variant","MODERATE","Rv1716",827,"p.Val276Ala"]
["Rv1724c","rs157728585",1950767,"T","C","synonymous_variant","LOW","Rv1724c",285,"p.Lys95Lys"]
["Rv1734c","NA",1960782,"T","C","missense_variant","MODERATE","Rv1734c",235,"p.Thr79Ala"]
["Rv1769","NA",2003091,"C","T","synonymous_variant","LOW","Rv1769",466,"p.Leu156Leu"]
["Rv1794","NA",2031176,"G","T","synonymous_variant","LOW","Rv1794",111,"p.Pro37Pro"]
["Rv1815","rs157728704",2057774,"A","T","missense_variant","MODERATE","Rv1815",247,"p.Ile83Phe"]
["Rv1829","NA",2074219,"C","T","missense_variant","MODERATE","Rv1829",277,"p.Arg93Cys"]
["Rv1830","NA",2074754,"C","T","upstream_gene_variant","MODIFIER","Rv1830",-87]
["Rv1830","rs157711471",2075089,"T","C","synonymous_variant","LOW","Rv1830",249,"p.Tyr83Tyr"]
["Rv1836c","rs157711523",2082865,"C","T","missense_variant","MODERATE","Rv1836c",1772,"p.Arg591His"]
["Rv1836c","NA",2084228,"G","A","missense_variant","MODERATE","Rv1836c",409,"p.Arg137Cys"]
["Rv1847","NA",2097128,"C","T","synonymous_variant","LOW","Rv1847",252,"p.Asn84Asn"]
["Rv1847","rs157711692",2097144,"G","C","missense_variant","MODERATE","Rv1847",268,"p.Val90Leu"]
["Rv1870c","rs157711770",2120796,"T","A","stop_lost&splice_region_variant","HIGH","Rv1870c",635,"p.Ter212Leuext*?"]
["Rv1873","NA",2123278,"T","G","synonymous_variant","LOW","Rv1873",105,"p.Gly35Gly"]
["Rv1870c","rs157711804",2125863,"C","T","upstream_gene_variant","MODIFIER","Rv1870c",-4433]
["Rv1897c","NA",2144637,"G","A","synonymous_variant","LOW","Rv1897c",246,"p.Asp82Asp"]
["Rv1904","NA",2151345,"C","T","missense_variant","MODERATE","Rv1904",392,"p.Thr131Met"]
["Rv1948c","rs157712247",2199052,"C","G","missense_variant","MODERATE","Rv1948c",13,"p.Gly5Arg"]
["Rv1949c","rs157712250",2199416,"A","G","missense_variant","MODERATE","Rv1949c",619,"p.Phe207Leu"]
["Rv1954c","NA",2201296,"T","C","missense_variant","MODERATE","Rv1954c",449,"p.His150Arg"]
["Rv1976c","rs157712366",2223293,"T","C","upstream_gene_variant","MODIFIER","Rv1976c",-4042]
["Rv1998c","rs157712480",2243034,"T","G","missense_variant","MODERATE","Rv1998c",688,"p.Ser230Arg"]
["Rv2001","rs157712504",2246960,"G","C","synonymous_variant","LOW","Rv2001",129,"p.Val43Val"]
["Rv2001","NA",2247169,"G","A","missense_variant","MODERATE","Rv2001",338,"p.Arg113His"]
["Rv2003c","rs157728838",2251999,"A","G","upstream_gene_variant","MODIFIER","Rv2003c",-2579]
["Rv2008c","rs157712548",2261693,"G","C","upstream_gene_variant","MODIFIER","Rv2008c",-3751]
["Rv2015c","NA",2262173,"A","C","synonymous_variant","LOW","Rv2015c",900,"p.Arg300Arg"]
["Rv2015c","NA",2262239,"A","G","synonymous_variant","LOW","Rv2015c",834,"p.Phe278Phe"]
["Rv2015c","rs157712616",2265059,"T","G","upstream_gene_variant","MODIFIER","Rv2015c",-1987]
["Rv2018","NA",2265626,"A","G","missense_variant","MODERATE","Rv2018",347,"p.Asp116Gly"]
["Rv2023c","rs157712659",2267976,"G","T","synonymous_variant","LOW","Rv2023c",133,"p.Arg45Arg"]
["Rv2020c","NA",2268397,"C","T","upstream_gene_variant","MODIFIER","Rv2020c",-1677]
["Rv2024c","rs157712734",2269376,"G","A","missense_variant","MODERATE","Rv2024c",865,"p.Arg289Cys"]
["Rv2024c","rs157728877",2269780,"T","C","missense_variant","MODERATE","Rv2024c",461,"p.Asp154Gly"]
["Rv2024c","rs157712742",2270102,"A","G","missense_variant","MODERATE","Rv2024c",139,"p.Trp47Arg"]
["Rv2032","NA",2280081,"C","T","missense_variant","MODERATE","acg",953,"p.Pro318Leu"]
["Rv2036","rs157712795",2282376,"C","T","missense_variant","MODERATE","Rv2036",278,"p.Ala93Val"]
["Rv2036","rs157712796",2282377,"C","T","synonymous_variant","LOW","Rv2036",279,"p.Ala93Ala"]
["Rv2052c","rs157712893",2311099,"C","G","synonymous_variant","LOW","Rv2052c",1419,"p.Pro473Pro"]
["Rv2078","rs157713147",2335075,"A","G","missense_variant","MODERATE","Rv2078",17,"p.Glu6Gly"]
["Rv2078","NA",2335127,"C","T","synonymous_variant","LOW","Rv2078",69,"p.His23His"]
["Rv2079","rs157713152",2335494,"A","G","missense_variant","MODERATE","Rv2079",140,"p.Tyr47Cys"]
["Rv2079","NA",2336001,"C","T","missense_variant","MODERATE","Rv2079",647,"p.Pro216Leu"]
["Rv2082","rs157713193",2339255,"A","G","missense_variant","MODERATE","Rv2082",547,"p.Thr183Ala"]
["Rv2082","NA",2340621,"C","G","missense_variant","MODERATE","Rv2082",1913,"p.Pro638Arg"]
["Rv2082","NA",2340689,"C","T","synonymous_variant","LOW","Rv2082",1981,"p.Leu661Leu"]
["Rv2083","rs157713209",2341030,"G","A","missense_variant","MODERATE","Rv2083",160,"p.Ala54Thr"]
["Rv2083","rs157713215",2341636,"C","G","missense_variant","MODERATE","Rv2083",766,"p.Leu256Val"]
["Rv2125","rs157713613",2386389,"G","A","missense_variant","MODERATE","Rv2125",97,"p.Gly33Ser"]
["Rv2143","NA",2403699,"G","C","synonymous_variant","LOW","Rv2143",723,"p.Leu241Leu"]
["Rv2185c","rs157713878",2447426,"G","T","synonymous_variant","LOW","TB16.3",75,"p.Ile25Ile"]
["Rv2205c","rs157713965",2470197,"A","G","synonymous_variant","LOW","Rv2205c",267,"p.Cys89Cys"]
["Rv2226","NA",2498923,"G","A","missense_variant","MODERATE","Rv2226",92,"p.Gly31Asp"]
["Rv2226","rs157714063",2499726,"G","A","missense_variant","MODERATE","Rv2226",895,"p.Asp299Asn"]
["Rv2227","rs157714070",2501148,"T","C","missense_variant","MODERATE","Rv2227",218,"p.Val73Ala"]
["Rv2227","NA",2501504,"T","C","missense_variant","MODERATE","Rv2227",574,"p.Phe192Leu"]
["Rv2229c","NA",2502757,"C","T","missense_variant","MODERATE","Rv2229c",716,"p.Arg239Gln"]
["Rv2237","NA",2509644,"G","A","synonymous_variant","LOW","Rv2237",156,"p.Gly52Gly"]
["Rv2237","rs157714105",2509722,"A","G","synonymous_variant","LOW","Rv2237",234,"p.Pro78Pro"]
["Rv2240c","rs157714108",2511712,"G","T","missense_variant","MODERATE","Rv2240c",569,"p.Thr190Lys"]
["Rv2242","rs157714115",2515639,"G","T","synonymous_variant","LOW","Rv2242",336,"p.Val112Val"]
["Rv2239c","rs157714117",2516567,"G","C","upstream_gene_variant","MODIFIER","Rv2239c",-4915]
["Rv2248","rs157714143",2522284,"G","A","upstream_gene_variant","MODIFIER","Rv2248",-76]
["Rv2256c","rs157714165",2529680,"A","G","synonymous_variant","LOW","Rv2256c",195,"p.Thr65Thr"]
["Rv2256c","NA",2529798,"G","C","missense_variant","MODERATE","Rv2256c",77,"p.Ala26Gly"]
["Rv2286c","NA",2559170,"G","A","stop_gained","HIGH","Rv2286c",400,"p.Gln134*"]
["Rv2300c","NA",2572460,"G","A","synonymous_variant","LOW","Rv2300c",549,"p.His183His"]
["Rv2308","NA",2580546,"G","T","missense_variant","MODERATE","Rv2308",128,"p.Gly43Val"]
["Rv2308","rs157714377",2581109,"C","A","synonymous_variant","LOW","Rv2308",691,"p.Arg231Arg"]
["Rv2309A","NA",2583201,"G","A","missense_variant","MODERATE","Rv2309A",157,"p.Glu53Lys"]
["Rv2314c","rs157714399",2586127,"A","G","synonymous_variant","LOW","Rv2314c",1164,"p.Gly388Gly"]
["Rv2323c","NA",2595933,"C","T","missense_variant","MODERATE","Rv2323c",337,"p.Ala113Thr"]
["Rv2331A","NA",2604875,"A","C","missense_variant","MODERATE","Rv2331A",136,"p.Ile46Leu"]
["Rv2336","rs157714506",2611583,"C","T","synonymous_variant","LOW","Rv2336",747,"p.His249His"]
["Rv2337c","NA",2612300,"G","T","synonymous_variant","LOW","Rv2337c",688,"p.Arg230Arg"]
["Rv2337c","rs157714510",2612632,"C","A","missense_variant","MODERATE","Rv2337c",356,"p.Gly119Val"]
["Rv2360c","rs157714636",2642383,"C","T","missense_variant","MODERATE","Rv2360c",196,"p.Ala66Thr"]
["Rv2405","NA",2703829,"C","T","synonymous_variant","LOW","Rv2405",561,"p.Ala187Ala"]
["Rv2411c","rs157714899",2709795,"A","G","synonymous_variant","LOW","Rv2411c",171,"p.Ala57Ala"]
["Rv2415c","rs157714920",2712913,"C","A","missense_variant","MODERATE","Rv2415c",872,"p.Arg291Leu"]
["Rv2411c","rs157714930",2713795,"C","T","upstream_gene_variant","MODIFIER","Rv2411c",-3830]
["Rv2418c","NA",2716806,"T","C","synonymous_variant","LOW","Rv2418c",333,"p.Arg111Arg"]
["Rv2426c","rs157714980",2723506,"T","C","synonymous_variant","LOW","Rv2426c",678,"p.Leu226Leu"]
["Rv2426c","NA",2723847,"A","G","missense_variant","MODERATE","Rv2426c",337,"p.Phe113Leu"]
["Rv2449c","rs157715114",2751300,"G","A","synonymous_variant","LOW","Rv2449c",273,"p.Thr91Thr"]
["Rv2451","NA",2752448,"A","G","missense_variant","MODERATE","Rv2451",187,"p.Asn63Asp"]
["Rv2469c","rs157715326",2772741,"C","A","missense_variant","MODERATE","Rv2469c",295,"p.Ala99Ser"]
["Rv2469c","rs157715328",2772954,"T","C","missense_variant","MODERATE","Rv2469c",82,"p.Ser28Gly"]
["Rv2474c","NA",2776881,"G","A","missense_variant","MODERATE","Rv2474c",89,"p.Ala30Val"]
["Rv2492","rs157715676",2807486,"C","A","missense_variant","MODERATE","Rv2492",209,"p.Ala70Asp"]
["Rv2513","rs157715771",2830525,"C","A","missense_variant","MODERATE","Rv2513",365,"p.Thr122Lys"]
["Rv2515c","NA",2831482,"A","G","synonymous_variant","LOW","Rv2515c",1110,"p.Gly370Gly"]
["Rv2529","rs157715987",2853155,"G","A","missense_variant","MODERATE","Rv2529",281,"p.Gly94Glu"]
["Rv2542","rs157729186",2865760,"A","G","missense_variant","MODERATE","Rv2542",631,"p.Thr211Ala"]
["Rv2542","rs157729216",2865882,"T","C","synonymous_variant","LOW","Rv2542",753,"p.Val251Val"]
["Rv2548A","rs157716129",2870386,"C","T","upstream_gene_variant","MODIFIER","Rv2548A",-759]
["Rv2559c","rs157716182",2878980,"C","T","missense_variant","MODERATE","Rv2559c",950,"p.Gly317Asp"]
["Rv2562","NA",2881966,"T","C","missense_variant","MODERATE","Rv2562",209,"p.Ile70Thr"]
["Rv2566","rs157716210",2886400,"G","A","missense_variant","MODERATE","Rv2566",28,"p.Gly10Ser"]
["Rv2566","rs157716212",2886570,"A","G","synonymous_variant","LOW","Rv2566",198,"p.Glu66Glu"]
["Rv2566","NA",2887180,"G","T","missense_variant","MODERATE","Rv2566",808,"p.Ala270Ser"]
["Rv2566","rs157716218",2888201,"T","C","missense_variant","MODERATE","Rv2566",1829,"p.Leu610Pro"]
["Rv2566","rs157716224",2889633,"T","C","synonymous_variant","LOW","Rv2566",3261,"p.Ala1087Ala"]
["Rv2567","NA",2890668,"C","T","synonymous_variant","LOW","Rv2567",874,"p.Leu292Leu"]
["Rv2567","rs157716232",2891267,"C","T","synonymous_variant","LOW","Rv2567",1473,"p.Gly491Gly"]
["Rv2567","rs157716236",2891728,"A","G","missense_variant","MODERATE","Rv2567",1934,"p.Gln645Arg"]
["Rv2569c","rs157716245",2894208,"G","A","synonymous_variant","LOW","Rv2569c",201,"p.Ser67Ser"]
["Rv2568c","NA",2897842,"G","C","upstream_gene_variant","MODIFIER","Rv2568c",-4371]
["Rv2568c","rs157716266",2897871,"A","G","upstream_gene_variant","MODIFIER","Rv2568c",-4400]
["Rv2598","NA",2927291,"G","A","synonymous_variant","LOW","Rv2598",306,"p.Ala102Ala"]
["Rv2614A","NA",2943545,"G","A","missense_variant","MODERATE","Rv2614A",170,"p.Arg57His"]
["Rv2616","NA",2945543,"G","A","missense_variant","MODERATE","Rv2616",214,"p.Val72Ile"]
["Rv2627c","rs157716508",2959324,"A","G","upstream_gene_variant","MODIFIER","Rv2627c",-4576]
["Rv2675c","rs157716857",2991694,"C","G","synonymous_variant","LOW","Rv2675c",243,"p.Ser81Ser"]
["Rv2681","NA",2997325,"C","T","missense_variant","MODERATE","Rv2681",587,"p.Ala196Val"]
["Rv2683","rs157716891",3000362,"T","C","missense_variant","MODERATE","Rv2683",251,"p.Leu84Ser"]
["Rv2689c","rs157716951",3006898,"G","A","synonymous_variant","LOW","Rv2689c",165,"p.Tyr55Tyr"]
["Rv2694c","rs157716974",3011566,"G","T","missense_variant","MODERATE","Rv2694c",202,"p.Arg68Ser"]
["Rv2696c","NA",3013119,"C","T","missense_variant","MODERATE","Rv2696c",490,"p.Asp164Asn"]
["Rv2714","rs157717046",3027606,"C","G","missense_variant","MODERATE","Rv2714",542,"p.Ser181Trp"]
["Rv2714","rs157717047",3027798,"T","C","missense_variant","MODERATE","Rv2714",734,"p.Val245Ala"]
["Rv2714","NA",3027955,"G","A","synonymous_variant","LOW","Rv2714",891,"p.Leu297Leu"]
["Rv2742c","NA",3055922,"A","G","synonymous_variant","LOW","Rv2742c",427,"p.Leu143Leu"]
["Rv2762c","NA",3072927,"G","A","stop_gained","HIGH","Rv2762c",130,"p.Gln44*"]
["Rv2771c","rs157717309",3080795,"A","G","missense_variant","MODERATE","Rv2771c",239,"p.Leu80Pro"]
["Rv2795c","rs157717703",3104189,"A","G","synonymous_variant","LOW","Rv2795c",723,"p.Cys241Cys"]
["Rv2804c","rs157718129",3112877,"G","A","missense_variant","MODERATE","Rv2804c",218,"p.Ala73Val"]
["Rv2804c","NA",3112923,"C","T","missense_variant","MODERATE","Rv2804c",172,"p.Ala58Thr"]
["Rv2807","rs157718147",3113872,"A","T","missense_variant","MODERATE","Rv2807",215,"p.Glu72Val"]
["Rv2809","NA",3115543,"A","C","missense_variant","MODERATE","Rv2809",136,"p.Thr46Pro"]
["Rv2813","rs157718230",3118449,"A","G","missense_variant","MODERATE","Rv2813",226,"p.Ile76Val"]
["Rv2820c","rs157718395",3127466,"T","G","synonymous_variant","LOW","Rv2820c",807,"p.Arg269Arg"]
["Rv2825c","NA",3132963,"A","G","synonymous_variant","LOW","Rv2825c",577,"p.Leu193Leu"]
["Rv2825c","NA",3132975,"C","G","missense_variant","MODERATE","Rv2825c",565,"p.Val189Leu"]
["Rv2825c","NA",3133054,"C","G","synonymous_variant","LOW","Rv2825c",486,"p.Ser162Ser"]
["Rv2825c","NA",3133055,"G","C","missense_variant","MODERATE","Rv2825c",485,"p.Ser162Trp"]
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["Rv2879c","NA",3189664,"T","C","synonymous_variant","LOW","Rv2879c",489,"p.Lys163Lys"]
["Rv2891","rs157719146",3200304,"A","G","synonymous_variant","LOW","Rv2891",39,"p.Val13Val"]
["Rv2896c","NA",3206265,"T","C","missense_variant","MODERATE","Rv2896c",170,"p.Glu57Gly"]
["Rv2897c","NA",3207250,"A","T","synonymous_variant","LOW","Rv2897c",693,"p.Leu231Leu"]
["Rv2917","rs157729692",3228143,"G","T","missense_variant","MODERATE","Rv2917",1781,"p.Arg594Leu"]
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["Rv2955c","NA",3308466,"C","T","missense_variant","MODERATE","Rv2955c",80,"p.Arg27His"]
["Rv2956","NA",3309377,"T","C","missense_variant","MODERATE","Rv2956",710,"p.Ile237Thr"]
["Rv2990c","NA",3347070,"G","T","missense_variant","MODERATE","Rv2990c",650,"p.Ala217Glu"]
["Rv2991","rs157719709",3348258,"G","A","missense_variant","MODERATE","Rv2991",277,"p.Ala93Thr"]
["Rv3037c","NA",3398271,"T","G","missense_variant","MODERATE","Rv3037c",20,"p.Asp7Ala"]
["Rv3075c","rs157720461",3438386,"G","A","synonymous_variant","LOW","Rv3075c",588,"p.Ile196Ile"]
["Rv3090","rs157720665",3457514,"G","C","upstream_gene_variant","MODIFIER","Rv3090",-697]
["Rv3096","rs157720689",3464629,"A","G","missense_variant","MODERATE","Rv3096",83,"p.Glu28Gly"]
["Rv3098c","NA",3467315,"G","C","missense_variant","MODERATE","Rv3098c",348,"p.Asp116Glu"]
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["Rv3108","NA",3477489,"A","G","missense_variant","MODERATE","Rv3108",430,"p.Ile144Val"]
["Rv3114","rs157720743",3480789,"T","C","missense_variant","MODERATE","Rv3114",31,"p.Ser11Pro"]
["Rv3122","rs157720758",3488556,"G","T","missense_variant","MODERATE","Rv3122",468,"p.Arg156Ser"]
["Rv3123","rs157720759",3488687,"G","A","missense_variant","MODERATE","Rv3123",119,"p.Arg40Gln"]
["Rv3127","NA",3492430,"T","G","missense_variant","MODERATE","Rv3127",284,"p.Phe95Cys"]
["Rv3142c","NA",3511587,"T","G","upstream_gene_variant","MODIFIER","Rv3142c",-2041]
["Rv3166c","NA",3534980,"C","G","synonymous_variant","LOW","Rv3166c",372,"p.Val124Val"]
["Rv3190c","rs157721111",3555699,"A","G","missense_variant","MODERATE","Rv3190c",989,"p.Val330Ala"]
["Rv3190c","rs157721113",3556275,"A","G","missense_variant","MODERATE","Rv3190c",413,"p.Leu138Pro"]
["Rv3195","NA",3565449,"G","A","synonymous_variant","LOW","Rv3195",1086,"p.Glu362Glu"]
["Rv3207c","NA",3584190,"C","T","missense_variant","MODERATE","Rv3207c",469,"p.Asp157Asn"]
["Rv3212","NA",3590142,"T","C","missense_variant","MODERATE","Rv3212",749,"p.Val250Ala"]
["Rv3218","NA",3594851,"G","A","synonymous_variant","LOW","Rv3218",384,"p.Gln128Gln"]
["Rv3218","NA",3595427,"G","A","synonymous_variant","LOW","Rv3218",960,"p.Arg320Arg"]
["Rv3228","rs157721485",3604821,"G","C","synonymous_variant","LOW","Rv3228",96,"p.Ala32Ala"]
["Rv3235","rs157721554",3611488,"G","C","synonymous_variant","LOW","Rv3235",189,"p.Gly63Gly"]
["Rv3243c","rs157721621",3622441,"A","C","synonymous_variant","LOW","Rv3243c",651,"p.Val217Val"]
["Rv3272","NA",3654487,"A","G","missense_variant","MODERATE","Rv3272",1040,"p.Asn347Ser"]
["Rv3282","NA",3664615,"G","T","missense_variant","MODERATE","Rv3282",397,"p.Ala133Ser"]
["Rv3354","NA",3769445,"T","C","missense_variant","MODERATE","Rv3354",335,"p.Val112Ala"]
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["Rv3395c","rs157723331",3811629,"G","A","missense_variant","MODERATE","Rv3395c",8,"p.Ala3Val"]
["Rv3403c","rs157723376",3823159,"A","T","synonymous_variant","LOW","Rv3403c",705,"p.Val235Val"]
["Rv3440c","rs157723582",3859893,"C","T","synonymous_variant","LOW","Rv3440c",84,"p.Glu28Glu"]
["Rv3471c","NA",3888877,"G","C","missense_variant","MODERATE","Rv3471c",465,"p.Cys155Trp"]
["Rv3484","NA",3904490,"G","A","synonymous_variant","LOW","cpsA",1413,"p.Glu471Glu"]
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["Rv3531c","NA",3968252,"C","T","synonymous_variant","LOW","Rv3531c",693,"p.Ser231Ser"]
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["Rv3698","NA",4140498,"A","C","synonymous_variant","LOW","Rv3698",6,"p.Arg2Arg"]
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["Rv3698","NA",4141190,"C","G","missense_variant","MODERATE","Rv3698",698,"p.Pro233Arg"]
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["Rv3719","rs157725341",4162339,"A","G","missense_variant","MODERATE","Rv3719",34,"p.Thr12Ala"]
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["Rv3776","rs157725656",4221490,"C","G","synonymous_variant","LOW","Rv3776",402,"p.Leu134Leu"]
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["Rv3785","NA",4231433,"A","G","synonymous_variant","LOW","Rv3785",114,"p.Ala38Ala"]
["Rv3785","rs157725754",4232327,"A","G","synonymous_variant","LOW","Rv3785",1008,"p.Arg336Arg"]
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["Rv3796","NA",4250836,"C","T","missense_variant","MODERATE","Rv3796",959,"p.Thr320Ile"]
["Rv3813c","NA",4278968,"A","G","missense_variant","MODERATE","Rv3813c",248,"p.Met83Thr"]
["Rv3822","NA",4286884,"G","A","missense_variant","MODERATE","Rv3822",164,"p.Cys55Tyr"]
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["Rv3860","NA",4337468,"T","C","missense_variant","MODERATE","Rv3860",692,"p.Val231Ala"]
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["Rv0470c","NA",561298,"C","T","synonymous_variant","LOW","pcaA",414,"p.Ala138Ala"]
["Rv0470c","rs157702583",565655,"A","G","upstream_gene_variant","MODIFIER","pcaA",-3944]
["Rv0533c","rs157702846",630018,"A","G","upstream_gene_variant","MODIFIER","fabH",-4538]
["Rv0557","rs157702932",648856,"T","C","synonymous_variant","LOW","mgtA",321,"p.Gly107Gly"]
["Rv0564c","rs157702983",659341,"T","C","upstream_gene_variant","MODIFIER","gpdA1",-3392]
["Rv0632c","rs157703446",729114,"G","A","synonymous_variant","LOW","echA3",165,"p.Gly55Gly"]
["Rv0642c","NA",736313,"C","T","synonymous_variant","LOW","mmaA4",891,"p.Pro297Pro"]
["Rv0642c","rs157703471",736919,"G","T","missense_variant","MODERATE","mmaA4",285,"p.Phe95Leu"]
["Rv0644c","rs157703477",738820,"C","A","missense_variant","MODERATE","mmaA2",341,"p.Arg114Leu"]
["Rv0672","NA",772896,"G","A","synonymous_variant","LOW","fadE8",1413,"p.Leu471Leu"]
["Rv0752c","NA",843859,"T","C","missense_variant","MODERATE","fadE9",556,"p.Ile186Val"]
["Rv0752c","NA",844209,"A","G","missense_variant","MODERATE","fadE9",206,"p.Val69Ala"]
["Rv0859","rs157704785",955524,"A","G","missense_variant","MODERATE","fadA",448,"p.Ser150Gly"]
["Rv0860","rs157704796",957117,"T","C","synonymous_variant","LOW","fadB",825,"p.Asp275Asp"]
["Rv0860","NA",957963,"G","A","synonymous_variant","LOW","fadB",1671,"p.Leu557Leu"]
["Rv0860","NA",958393,"G","A","missense_variant","MODERATE","fadB",2101,"p.Ala701Thr"]
["Rv0873","NA",971902,"G","A","synonymous_variant","LOW","fadE10",1398,"p.Gly466Gly"]
["Rv0972c","NA",1083043,"C","A","missense_variant","MODERATE","fadE12",708,"p.Gln236His"]
["Rv0973c","NA",1085093,"T","A","missense_variant","MODERATE","accA2",658,"p.Ile220Phe"]
["Rv0974c","rs157706078",1087193,"G","C","missense_variant","MODERATE","accD2",153,"p.Asn51Lys"]
["Rv1074c","NA",1198276,"G","A","synonymous_variant","LOW","fadA3",1098,"p.Gly366Gly"]
["Rv1071c","rs157706582",1200418,"A","G","upstream_gene_variant","MODIFIER","echA9",-4326]
["Rv1153c","NA",1280689,"T","C","missense_variant","MODERATE","omt",158,"p.Asp53Gly"]
["Rv1153c","NA",1280741,"C","T","missense_variant","MODERATE","omt",106,"p.Ala36Thr"]
["Rv1175c","rs157707069",1306259,"A","G","synonymous_variant","LOW","fadH",1968,"p.Ala656Ala"]
["Rv1175c","rs157707070",1306281,"A","C","missense_variant","MODERATE","fadH",1946,"p.Ile649Ser"]
["Rv1175c","rs157707076",1307598,"C","G","missense_variant","MODERATE","fadH",629,"p.Cys210Ser"]
["Rv1175c","NA",1307958,"G","T","missense_variant","MODERATE","fadH",269,"p.Thr90Asn"]
["Rv1180","rs157728131",1315191,"A","C","stop_lost&splice_region_variant","HIGH","pks3",1467,"p.Ter489Tyrext*?"]
["Rv1181","rs157728134",1315884,"G","A","synonymous_variant","LOW","pks4",651,"p.Ala217Ala"]
["Rv1181","NA",1316927,"A","C","missense_variant","MODERATE","pks4",1694,"p.Asp565Ala"]
["Rv1425","rs157708643",1600685,"C","T","missense_variant","MODERATE","Rv1425",1028,"p.Pro343Leu"]
["Rv1472","rs157708963",1659994,"C","T","missense_variant","MODERATE","echA12",232,"p.Pro78Ser"]
["Rv1483","NA",1672389,"T","C","upstream_gene_variant","MODIFIER","fabG1",-1051]
["Rv1493","NA",1684979,"T","C","synonymous_variant","LOW","mutB",975,"p.Ser325Ser"]
["Rv1521","rs157709308",1712522,"G","T","missense_variant","MODERATE","fadD25",221,"p.Ser74Ile"]
["Rv1521","rs157709312",1713192,"A","G","synonymous_variant","LOW","fadD25",891,"p.Val297Val"]
["Rv1527c","NA",1724095,"A","G","missense_variant","MODERATE","pks5",4315,"p.Phe1439Leu"]
["Rv1527c","rs157709379",1726816,"G","T","missense_variant","MODERATE","pks5",1594,"p.Pro532Thr"]
["Rv1527c","rs157709387",1728837,"A","G","upstream_gene_variant","MODIFIER","pks5",-428]
["Rv1550","NA",1754195,"G","A","synonymous_variant","LOW","fadD11",480,"p.Gly160Gly"]
["Rv1550","NA",1754572,"T","C","missense_variant","MODERATE","fadD11",857,"p.Leu286Ser"]
["Rv1618","rs157709905",1817976,"A","T","missense_variant","MODERATE","tesB1",362,"p.His121Leu"]
["Rv1661","rs157710338",1877311,"C","T","missense_variant","MODERATE","pks7",2008,"p.Arg670Trp"]
["Rv1662","rs157710403",1885481,"C","G","missense_variant","MODERATE","pks8",3778,"p.Arg1260Gly"]
["Rv1662","rs157710406",1885772,"G","A","missense_variant","MODERATE","pks8",4069,"p.Ala1357Thr"]
["Rv1662","NA",1886109,"A","G","missense_variant","MODERATE","pks8",4406,"p.Tyr1469Cys"]
["Rv1664","rs157710424",1888128,"G","A","missense_variant","MODERATE","pks9",103,"p.Ala35Thr"]
["Rv1664","rs157710428",1889073,"G","C","missense_variant","MODERATE","pks9",1048,"p.Ala350Pro"]
["Rv1722","NA",1947951,"G","A","missense_variant","MODERATE","Rv1722",91,"p.Val31Met"]
["Rv1722","NA",1949081,"C","T","synonymous_variant","LOW","Rv1722",1221,"p.Arg407Arg"]
["Rv1760","rs157711047",1993808,"A","T","missense_variant","MODERATE","Rv1760",656,"p.Glu219Val"]
["Rv1760","NA",1994566,"C","T","synonymous_variant","LOW","Rv1760",1414,"p.Leu472Leu"]
["Rv1866","NA",2113188,"G","C","missense_variant","MODERATE","Rv1866",49,"p.Glu17Gln"]
["Rv1867","rs157728732",2116903,"C","T","synonymous_variant","LOW","Rv1867",1140,"p.Gly380Gly"]
["Rv1912c","rs157712019",2158109,"T","C","missense_variant","MODERATE","fadB5",983,"p.Asp328Gly"]
["Rv2002","rs157712505",2247677,"A","C","synonymous_variant","LOW","fabG3",18,"p.Ile6Ile"]
["Rv2048c","NA",2294846,"C","T","synonymous_variant","LOW","pks12",12141,"p.Ala4047Ala"]
["Rv2048c","NA",2294849,"C","A","synonymous_variant","LOW","pks12",12138,"p.Leu4046Leu"]
["Rv2048c","NA",2295304,"C","T","missense_variant","MODERATE","pks12",11683,"p.Gly3895Ser"]
["Rv2048c","NA",2295943,"A","G","missense_variant","MODERATE","pks12",11044,"p.Cys3682Arg"]
["Rv2048c","NA",2296042,"G","C","missense_variant","MODERATE","pks12",10945,"p.Pro3649Ala"]
["Rv2048c","NA",2298193,"C","T","missense_variant","MODERATE","pks12",8794,"p.Gly2932Ser"]
["Rv2048c","NA",2300237,"A","G","synonymous_variant","LOW","pks12",6750,"p.Ala2250Ala"]
["Rv2048c","NA",2300546,"A","T","missense_variant","MODERATE","pks12",6441,"p.His2147Gln"]
["Rv2048c","NA",2300552,"T","G","synonymous_variant","LOW","pks12",6435,"p.Pro2145Pro"]
["Rv2048c","NA",2300555,"A","G","synonymous_variant","LOW","pks12",6432,"p.Asp2144Asp"]
["Rv2048c","rs157712858",2301089,"T","C","synonymous_variant","LOW","pks12",5898,"p.Leu1966Leu"]
["Rv2048c","NA",2301394,"C","T","missense_variant","MODERATE","pks12",5593,"p.Gly1865Ser"]
["Rv2187","rs157713883",2448458,"C","T","missense_variant","MODERATE","fadD15",299,"p.Thr100Ile"]
["Rv2187","rs157713885",2449295,"G","A","missense_variant","MODERATE","fadD15",1136,"p.Gly379Glu"]
["Rv2245","rs157714125",2518132,"C","T","synonymous_variant","LOW","kasA",18,"p.Thr6Thr"]
["Rv2247","rs157714134",2521342,"T","C","synonymous_variant","LOW","accD6",600,"p.Asp200Asp"]
["Rv2377c","rs157714682",2656225,"A","G","missense_variant","MODERATE","mbtH",206,"p.Val69Ala"]
["Rv2379c","NA",2658676,"G","A","missense_variant","MODERATE","mbtF",3410,"p.Ala1137Val"]
["Rv2379c","NA",2659542,"T","C","synonymous_variant","LOW","mbtF",2544,"p.Gly848Gly"]
["Rv2379c","rs157714691",2660319,"C","G","missense_variant","MODERATE","mbtF",1767,"p.Glu589Asp"]
["Rv2383c","NA",2675050,"C","T","missense_variant","MODERATE","mbtB",788,"p.Arg263Gln"]
["Rv2383c","rs157714739",2680658,"T","G","upstream_gene_variant","MODIFIER","mbtB",-4821]
["Rv2482c","rs157715372",2786952,"A","G","missense_variant","MODERATE","plsB2",2332,"p.Cys778Arg"]
["Rv2483c","rs157715389",2790458,"A","C","missense_variant","MODERATE","plsC",565,"p.Cys189Gly"]
["Rv2484c","rs157715395",2791098,"C","T","missense_variant","MODERATE","Rv2484c",1397,"p.Gly466Asp"]
["Rv2484c","rs157715398",2791475,"A","G","synonymous_variant","LOW","Rv2484c",1020,"p.Ala340Ala"]
["Rv2502c","NA",2817446,"G","T","missense_variant","MODERATE","accD1",1029,"p.Phe343Leu"]
["Rv2502c","NA",2818246,"C","T","missense_variant","MODERATE","accD1",229,"p.Gly77Ser"]
["Rv2503c","rs157715719",2818837,"A","G","synonymous_variant","LOW","scoB",291,"p.Gly97Gly"]
["Rv2505c","rs157715728",2821342,"C","T","synonymous_variant","LOW","fadD35",255,"p.Ala85Ala"]
["Rv2524c","rs157715892",2841022,"A","G","missense_variant","MODERATE","fas",8311,"p.Cys2771Arg"]
["Rv2524c","rs157715918",2847281,"A","G","synonymous_variant","LOW","fas",2052,"p.Asp684Asp"]
["Rv2590","NA",2918796,"T","A","missense_variant","MODERATE","fadD9",926,"p.Phe309Tyr"]
["Rv2590","NA",2919670,"G","A","synonymous_variant","LOW","fadD9",1800,"p.Leu600Leu"]
["Rv2605c","NA",2932890,"A","G","missense_variant","MODERATE","tesB2",253,"p.Phe85Leu"]
["Rv2611c","rs157716415",2939373,"G","C","missense_variant","MODERATE","Rv2611c",590,"p.Ser197Cys"]
["Rv2611c","rs157716417",2939657,"T","C","missense_variant","MODERATE","Rv2611c",306,"p.Ile102Met"]
["Rv2612c","NA",2945205,"C","T","upstream_gene_variant","MODIFIER","pgsA1",-4593]
["Rv2724c","NA",3036912,"A","G","missense_variant","MODERATE","fadE20",380,"p.Ile127Thr"]
["Rv2724c","NA",3037195,"G","C","missense_variant","MODERATE","fadE20",97,"p.Pro33Ala"]
["Rv2724c","NA",3041557,"T","C","upstream_gene_variant","MODIFIER","fadE20",-4266]
["Rv2794c","rs157717639",3103682,"T","C","missense_variant","MODERATE","pptT",259,"p.Met87Val"]
["Rv2930","rs157719309",3244414,"A","G","missense_variant","MODERATE","fadD26",718,"p.Met240Val"]
["Rv2931","NA",3246547,"A","C","missense_variant","MODERATE","ppsA",1103,"p.Asn368Thr"]
["Rv2931","rs157719319",3247316,"C","G","missense_variant","MODERATE","ppsA",1872,"p.Asp624Glu"]
["Rv2931","NA",3247579,"G","A","missense_variant","MODERATE","ppsA",2135,"p.Arg712Gln"]
["Rv2931","NA",3247851,"G","A","missense_variant","MODERATE","ppsA",2407,"p.Ala803Thr"]
["Rv2931","NA",3247856,"G","C","synonymous_variant","LOW","ppsA",2412,"p.Arg804Arg"]
["Rv2931","NA",3247874,"G","A","synonymous_variant","LOW","ppsA",2430,"p.Arg810Arg"]
["Rv2931","NA",3247883,"T","C","synonymous_variant","LOW","ppsA",2439,"p.Ser813Ser"]
["Rv2931","NA",3248074,"G","A","missense_variant","MODERATE","ppsA",2630,"p.Arg877His"]
["Rv2931","NA",3248075,"C","T","synonymous_variant","LOW","ppsA",2631,"p.Arg877Arg"]
["Rv2932","NA",3254695,"C","T","synonymous_variant","LOW","ppsB",3624,"p.Ala1208Ala"]
["Rv2932","rs157719334",3254880,"G","T","missense_variant","MODERATE","ppsB",3809,"p.Arg1270Leu"]
["Rv2933","rs157729708",3256494,"A","G","synonymous_variant","LOW","ppsC",810,"p.Gly270Gly"]
["Rv2933","NA",3261006,"C","A","synonymous_variant","LOW","ppsC",5322,"p.Gly1774Gly"]
["Rv2934","NA",3262628,"G","A","missense_variant","MODERATE","ppsD",381,"p.Met127Ile"]
["Rv2934","NA",3267715,"A","C","missense_variant","MODERATE","ppsD",5468,"p.Glu1823Ala"]
["Rv2935","rs157719403",3269581,"A","G","synonymous_variant","LOW","ppsE",1845,"p.Ala615Ala"]
["Rv2935","rs157719412",3270784,"A","G","synonymous_variant","LOW","ppsE",3048,"p.Gln1016Gln"]
["Rv2935","rs157729719",3271037,"A","G","missense_variant","MODERATE","ppsE",3301,"p.Asn1101Asp"]
["Rv2940c","NA",3282079,"T","A","missense_variant","MODERATE","mas",637,"p.Ser213Cys"]
["Rv2941","NA",3283339,"G","T","missense_variant","MODERATE","fadD28",5,"p.Ser2Ile"]
["Rv2941","NA",3283492,"A","G","missense_variant","MODERATE","fadD28",158,"p.Gln53Arg"]
["Rv2941","rs157719459",3283592,"G","C","synonymous_variant","LOW","fadD28",258,"p.Gly86Gly"]
["Rv2946c","NA",3292275,"G","A","missense_variant","MODERATE","pks1",4079,"p.Ala1360Val"]
["Rv2946c","NA",3292506,"A","C","missense_variant","MODERATE","pks1",3848,"p.Val1283Gly"]
["Rv2946c","NA",3293483,"G","A","synonymous_variant","LOW","pks1",2871,"p.Ala957Ala"]
["Rv2947c","rs157729727",3296721,"C","G","missense_variant","MODERATE","pks15",1120,"p.Gly374Arg"]
["Rv2947c","rs157719507",3296843,"A","G","missense_variant","MODERATE","pks15",998,"p.Val333Ala"]
["Rv2950c","rs157719542",3301252,"C","T","missense_variant","MODERATE","fadD29",1204,"p.Ala402Thr"]
["Rv2947c","rs157719549",3302683,"C","T","upstream_gene_variant","MODIFIER","pks15",-4843]
["Rv2982c","rs157719677",3338603,"G","C","missense_variant","MODERATE","gpdA2",397,"p.Pro133Ala"]
["Rv3061c","rs157720423",3429605,"G","A","upstream_gene_variant","MODIFIER","fadE22",-4178]
["Rv3087","rs157720593",3454263,"C","G","missense_variant","MODERATE","Rv3087",1339,"p.Leu447Val"]
["Rv3088","rs157720637",3455686,"G","C","synonymous_variant","LOW","tgs4",1347,"p.Leu449Leu"]
["Rv3089","rs157720656",3456666,"A","G","synonymous_variant","LOW","fadD13",906,"p.Ala302Ala"]
["Rv3229c","NA",3606627,"G","A","synonymous_variant","LOW","desA3",408,"p.Leu136Leu"]
["Rv3280","NA",3663404,"T","C","missense_variant","MODERATE","accD5",1343,"p.Val448Ala"]
["Rv3285","NA",3667562,"T","C","synonymous_variant","LOW","accA3",1206,"p.Gly402Gly"]
["Rv3371","rs157723158",3785946,"A","G","missense_variant","MODERATE","Rv3371",1015,"p.Arg339Gly"]
["Rv3371","rs157723159",3786033,"A","G","missense_variant","MODERATE","Rv3371",1102,"p.Ile368Val"]
["Rv3373","rs157723169",3788365,"T","G","stop_lost&splice_region_variant","HIGH","echA18",640,"p.Ter214Glyext*?"]
["Rv3383c","rs157723211",3798095,"A","C","missense_variant","MODERATE","idsB",395,"p.Val132Gly"]
["Rv3392c","rs157723323",3808103,"T","C","missense_variant","MODERATE","cmaA1",335,"p.Asn112Ser"]
["Rv3398c","rs157723343",3815477,"G","T","synonymous_variant","LOW","idsA1",630,"p.Ala210Ala"]
["Rv3399","rs157730148",3817117,"C","A","missense_variant","MODERATE","Rv3399",989,"p.Ala330Glu"]
["Rv3504","rs157723995",3922836,"T","C","synonymous_variant","LOW","fadE26",366,"p.Asp122Asp"]
["Rv3505","NA",3924350,"C","T","missense_variant","MODERATE","fadE27",653,"p.Ala218Val"]
["Rv3516","rs157724062",3952800,"G","A","missense_variant","MODERATE","echA19",257,"p.Gly86Asp"]
["Rv3522","rs157730261",3959418,"C","T","missense_variant","MODERATE","ltp4",971,"p.Thr324Ile"]
["Rv3556c","NA",3996647,"G","C","synonymous_variant","LOW","fadA6",318,"p.Gly106Gly"]
["Rv3561","rs157724437",4002847,"C","A","missense_variant","MODERATE","fadD3",1211,"p.Thr404Asn"]
["Rv3563","NA",4004604,"A","G","missense_variant","MODERATE","fadE32",314,"p.Gln105Arg"]
["Rv3563","rs157724461",4005114,"G","C","missense_variant","MODERATE","fadE32",824,"p.Trp275Ser"]
["Rv3564","NA",4005607,"T","C","synonymous_variant","LOW","fadE33",361,"p.Leu121Leu"]
["Rv3667","NA",4107973,"G","A","missense_variant","MODERATE","acs",182,"p.Gly61Glu"]
["Rv3720","NA",4164080,"G","A","synonymous_variant","LOW","Rv3720",345,"p.Gln115Gln"]
["Rv3740c","NA",4190916,"G","A","missense_variant","MODERATE","Rv3740c",1264,"p.Arg422Cys"]
["Rv3790","rs157725778",4236150,"C","T","synonymous_variant","LOW","dprE1",372,"p.Gly124Gly"]
["Rv3797","rs157730444",4251297,"G","C","synonymous_variant","LOW","fadE35",213,"p.Gly71Gly"]
["Rv3799c","rs157730446",4255922,"A","G","synonymous_variant","LOW","accD4",27,"p.His9His"]
["Rv3800c","rs157725875",4257220,"A","G","synonymous_variant","LOW","pks13",3927,"p.Arg1309Arg"]
["Rv3800c","rs157725889",4259579,"G","C","missense_variant","MODERATE","pks13",1568,"p.Ala523Gly"]
["Rv3801c","rs157725898",4261499,"G","A","missense_variant","MODERATE","fadD32",1568,"p.Ala523Val"]
["Rv3800c","rs157725901",4263279,"A","G","upstream_gene_variant","MODIFIER","pks13",-2133]
["Rv3804c","NA",4265726,"G","C","synonymous_variant","LOW","fbpA",933,"p.Gly311Gly"]
["Rv3820c","rs157736870",4284438,"G","A","missense_variant","MODERATE","papA2",1388,"p.Thr463Ile"]
["Rv3824c","rs157726016",4292095,"C","A","synonymous_variant","LOW","papA1",1080,"p.Ala360Ala"]
["Rv3825c","rs157726043",4296015,"G","A","synonymous_variant","LOW","pks2",3591,"p.Asp1197Asp"]

{"sheet":"Metabolism_respiration","index":5,"n_rows":459,"n_cols":10,"rows_kept":459,"flags":["formulas_cached_only"]}
["Rv_locus","rsid","Chr_po","Ref","Altq","Type","Effect","Gene","Gene_pos","aa_change"]
["Rv0013","rs157726938",15117,"C","G","missense_variant","MODERATE","trpG",204,"p.Ile68Met"]
["Rv0032","rs157698242",34044,"T","C","upstream_gene_variant","MODIFIER","bioF2",-251]
["Rv0032","NA",36304,"T","G","synonymous_variant","LOW","bioF2",2010,"p.Ala670Ala"]
["Rv0032","rs157698275",36538,"T","C","synonymous_variant","LOW","bioF2",2244,"p.Ser748Ser"]
["Rv0046c","rs157698353",50557,"T","C","missense_variant","MODERATE","ino1",568,"p.Arg190Gly"]
["Rv0062","NA",65867,"G","A","missense_variant","MODERATE","celA1",316,"p.Val106Ile"]
["Rv0066c","NA",74092,"C","T","synonymous_variant","LOW","icd2",420,"p.Leu140Leu"]
["Rv0066c","rs157727029",74161,"C","G","missense_variant","MODERATE","icd2",351,"p.Lys117Asn"]
["Rv0068","rs157698507",75940,"G","C","missense_variant","MODERATE","Rv0068",640,"p.Val214Leu"]
["Rv0070c","rs157698515",78103,"T","C","missense_variant","MODERATE","glyA2",794,"p.Glu265Gly"]
["Rv0066c","NA",79361,"G","C","upstream_gene_variant","MODIFIER","icd2",-4850]
["Rv0069c","rs157698524",80616,"C","G","upstream_gene_variant","MODIFIER","sdaA",-2994]
["Rv0083","rs157698569",90929,"C","T","missense_variant","MODERATE","Rv0083",530,"p.Ala177Val"]
["Rv0083","rs157727051",92199,"T","G","synonymous_variant","LOW","Rv0083",1800,"p.Thr600Thr"]
["Rv0083","NA",92322,"A","T","stop_lost&splice_region_variant","HIGH","Rv0083",1923,"p.Ter641Cysext*?"]
["Rv0086","NA",94303,"T","C","missense_variant","MODERATE","hycQ",353,"p.Met118Thr"]
["Rv0087","NA",96101,"G","A","missense_variant","MODERATE","hycE",688,"p.Val230Ile"]
["Rv0089","rs157698870",97696,"T","C","upstream_gene_variant","MODIFIER","Rv0089",-62]
["Rv0091","rs157698911",99301,"C","T","upstream_gene_variant","MODIFIER","mtn",-383]
["Rv0118c","rs157699321",143207,"T","C","missense_variant","MODERATE","oxcA",670,"p.Ser224Gly"]
["Rv0118c","NA",147873,"A","C","upstream_gene_variant","MODIFIER","oxcA",-3997]
["Rv0133","NA",160953,"G","T","missense_variant","MODERATE","Rv0133",85,"p.Val29Phe"]
["Rv0156","NA",184727,"A","G","missense_variant","MODERATE","pntAb",5,"p.Tyr2Cys"]
["Rv0186","rs157700220",217201,"T","C","synonymous_variant","LOW","bglS",933,"p.Asn311Asn"]
["Rv0186","NA",217863,"C","G","missense_variant","MODERATE","bglS",1595,"p.Pro532Arg"]
["Rv0197","rs157700425",233358,"A","C","synonymous_variant","LOW","Rv0197",1128,"p.Val376Val"]
["Rv0197","rs157700426",233364,"G","C","missense_variant","MODERATE","Rv0197",1134,"p.Arg378Ser"]
["Rv0197","rs157727231",234477,"T","G","stop_gained","HIGH","Rv0197",2247,"p.Tyr749*"]
["Rv0217c","rs157700631",260282,"G","T","missense_variant","MODERATE","lipW",550,"p.Pro184Thr"]
["Rv0223c","NA",266859,"G","A","synonymous_variant","LOW","Rv0223c",906,"p.Asp302Asp"]
["Rv0223c","NA",267329,"G","A","missense_variant","MODERATE","Rv0223c",436,"p.Pro146Ser"]
["Rv0224c","NA",268277,"G","C","missense_variant","MODERATE","Rv0224c",351,"p.Phe117Leu"]
["Rv0228","rs157700669",273558,"C","G","synonymous_variant","LOW","Rv0228",504,"p.Ser168Ser"]
["Rv0241c","NA",290454,"C","T","synonymous_variant","LOW","htdX",201,"p.Leu67Leu"]
["Rv0247c","rs157700805",301687,"C","T","upstream_gene_variant","MODIFIER","Rv0247c",-2825]
["Rv0252","rs157700811",303039,"C","T","synonymous_variant","LOW","nirB",174,"p.Gly58Gly"]
["Rv0252","rs157700824",304923,"A","G","synonymous_variant","LOW","nirB",2058,"p.Lys686Lys"]
["Rv0255c","NA",307103,"C","T","synonymous_variant","LOW","cobQ1",756,"p.Gly252Gly"]
["Rv0266c","rs157700918",320180,"A","G","synonymous_variant","LOW","oplA",975,"p.Ile325Ile"]
["Rv0266c","rs157700929",323306,"A","G","upstream_gene_variant","MODIFIER","oplA",-2152]
["Rv0315","rs157701276",384380,"A","C","missense_variant","MODERATE","Rv0315",779,"p.Lys260Thr"]
["Rv0321","NA",389129,"A","G","missense_variant","MODERATE","dcd",548,"p.Tyr183Cys"]
["Rv0327c","NA",393748,"G","A","missense_variant","MODERATE","cyp135A1",298,"p.His100Tyr"]
["Rv0327c","NA",397386,"C","T","upstream_gene_variant","MODIFIER","cyp135A1",-3341]
["Rv0338c","rs157701374",403980,"G","A","missense_variant","MODERATE","Rv0338c",1862,"p.Ala621Val"]
["Rv0338c","rs157727376",404326,"T","C","missense_variant","MODERATE","Rv0338c",1516,"p.Arg506Gly"]
["Rv0338c","rs157701383",405788,"C","A","synonymous_variant","LOW","Rv0338c",54,"p.Val18Val"]
["Rv0337c","rs157701384",405854,"C","G","upstream_gene_variant","MODIFIER","aspC",-2692]
["Rv0370c","rs157701728",447442,"C","T","missense_variant","MODERATE","Rv0370c",602,"p.Gly201Glu"]
["Rv0373c","rs157701749",450115,"C","T","synonymous_variant","LOW","Rv0373c",1689,"p.Ser563Ser"]
["Rv0373c","NA",451439,"A","G","missense_variant","MODERATE","Rv0373c",365,"p.Phe122Ser"]
["Rv0374c","NA",451827,"C","T","synonymous_variant","LOW","Rv0374c",453,"p.Ala151Ala"]
["Rv0380c","rs157727453",459399,"A","C","upstream_gene_variant","MODIFIER","Rv0380c",-2580]
["Rv0389","rs157701838",468357,"A","G","missense_variant","MODERATE","purT",23,"p.Glu8Gly"]
["Rv0389","NA",469329,"T","C","missense_variant","MODERATE","purT",995,"p.Ile332Thr"]
["Rv0392c","NA",471918,"A","G","missense_variant","MODERATE","ndhA",722,"p.Val241Ala"]
["Rv0407","rs157702004",491742,"T","C","synonymous_variant","LOW","fgd1",960,"p.Phe320Phe"]
["Rv0408","rs157702005",492150,"G","C","missense_variant","MODERATE","pta",365,"p.Gly122Ala"]
["Rv0409","rs157702018",494685,"A","C","synonymous_variant","LOW","ackA",835,"p.Arg279Arg"]
["Rv0415","NA",501620,"C","T","missense_variant","MODERATE","thiO",473,"p.Ala158Val"]
["Rv0417","rs157702047",502589,"C","G","missense_variant","MODERATE","thiG",224,"p.Ser75Cys"]
["Rv0428c","rs157702348",517358,"T","C","missense_variant","MODERATE","Rv0428c",446,"p.Asp149Gly"]
["Rv0428c","rs157702350",517411,"A","G","synonymous_variant","LOW","Rv0428c",393,"p.Arg131Arg"]
["Rv0438c","rs157702413",527316,"C","G","missense_variant","MODERATE","moeA2",45,"p.Met15Ile"]
["Rv0484c","rs157702605",573262,"A","G","synonymous_variant","LOW","Rv0484c",540,"p.Gly180Gly"]
["Rv0484c","NA",573277,"G","C","synonymous_variant","LOW","Rv0484c",525,"p.Thr175Thr"]
["Rv0484c","rs157727605",573384,"T","G","missense_variant","MODERATE","Rv0484c",418,"p.Ile140Leu"]
["Rv0492c","NA",581821,"G","A","missense_variant","MODERATE","Rv0492c",1558,"p.Leu520Phe"]
["Rv0492c","NA",582221,"T","C","synonymous_variant","LOW","Rv0492c",1158,"p.Gly386Gly"]
["Rv0500","rs157702662",590436,"T","C","synonymous_variant","LOW","proC",354,"p.Ala118Ala"]
["Rv0500","rs157702665",590763,"G","C","missense_variant","MODERATE","proC",681,"p.Glu227Asp"]
["Rv0512","NA",605338,"A","G","missense_variant","MODERATE","hemB",737,"p.Glu246Gly"]
["Rv0517","NA",609363,"C","T","synonymous_variant","LOW","Rv0517",618,"p.His206His"]
["Rv0542c","rs157702882",640129,"C","T","upstream_gene_variant","MODIFIER","menE",-4625]
["Rv0562","NA",652935,"C","T","synonymous_variant","LOW","grcC1",165,"p.Gly55Gly"]
["Rv0560c","rs157702972",655986,"T","G","upstream_gene_variant","MODIFIER","Rv0560c",-4482]
["Rv0567","rs157702980",658923,"C","G","missense_variant","MODERATE","Rv0567",603,"p.Phe201Leu"]
["Rv0573c","NA",666862,"A","G","synonymous_variant","LOW","pncB2",381,"p.Phe127Phe"]
["Rv0575c","rs157703023",669398,"T","C","synonymous_variant","LOW","Rv0575c",348,"p.Gln116Gln"]
["Rv0618","NA",712082,"C","G","missense_variant","MODERATE","galTa",547,"p.Arg183Gly"]
["Rv0618","NA",712129,"G","C","synonymous_variant","LOW","galTa",594,"p.Ala198Ala"]
["Rv0619","rs157727672",712693,"A","G","missense_variant","MODERATE","galTb",520,"p.Thr174Ala"]
["Rv0620","rs157703306",713310,"T","C","missense_variant","MODERATE","galK",595,"p.Cys199Arg"]
["Rv0620","rs157703320",713802,"C","T","missense_variant","MODERATE","galK",1087,"p.Arg363Cys"]
["Rv0636","NA",732552,"A","G","missense_variant","MODERATE","hadB",160,"p.Thr54Ala"]
["Rv0648","NA",743317,"C","T","missense_variant","MODERATE","Rv0648",599,"p.Ser200Leu"]
["Rv0648","NA",745229,"G","A","synonymous_variant","LOW","Rv0648",2511,"p.Pro837Pro"]
["Rv0663","rs157703538",757182,"A","G","missense_variant","MODERATE","atsD",1046,"p.Asp349Gly"]
["Rv0669c","NA",769162,"A","G","missense_variant","MODERATE","Rv0669c",436,"p.Ser146Pro"]
["Rv0669c","NA",769679,"A","C","upstream_gene_variant","MODIFIER","Rv0669c",-82]
["Rv0711","rs157703814",806454,"G","T","synonymous_variant","LOW","atsA",120,"p.Leu40Leu"]
["Rv0727c","rs157703939",820483,"G","T","missense_variant","MODERATE","fucA",17,"p.Ala6Asp"]
["Rv0728c","rs157703943",820752,"C","T","missense_variant","MODERATE","serA2",725,"p.Arg242His"]
["Rv0729","rs157703949",821907,"T","C","missense_variant","MODERATE","xylB",401,"p.Leu134Pro"]
["Rv0753c","NA",844629,"A","C","missense_variant","MODERATE","mmsA",1325,"p.Val442Gly"]
["Rv0751c","rs157704019",847995,"T","C","upstream_gene_variant","MODIFIER","mmsB",-4764]
["Rv0764c","rs157704240",857696,"A","G","synonymous_variant","LOW","cyp51",342,"p.Ala114Ala"]
["Rv0769","NA",862575,"C","T","missense_variant","MODERATE","Rv0769",164,"p.Ala55Val"]
["Rv0777","rs157704308",871271,"A","C","missense_variant","MODERATE","purB",1264,"p.Thr422Pro"]
["Rv0800","rs157704461",893733,"T","G","missense_variant","MODERATE","pepC",416,"p.Leu139Arg"]
["Rv0808","NA",903511,"C","G","synonymous_variant","LOW","purF",1401,"p.Val467Val"]
["Rv0808","rs157727833",903550,"T","C","synonymous_variant","LOW","purF",1440,"p.Ala480Ala"]
["Rv0809","rs157704559",903913,"T","C","synonymous_variant","LOW","purM",189,"p.Gly63Gly"]
["Rv0812","rs157704574",906857,"A","G","missense_variant","MODERATE","Rv0812",435,"p.Ile145Met"]
["Rv0843","NA",939959,"A","G","missense_variant","MODERATE","Rv0843",572,"p.Asp191Gly"]
["Rv0848","rs157704730",945214,"G","A","missense_variant","MODERATE","cysK2",277,"p.Gly93Ser"]
["Rv0851c","rs157704747",948294,"T","C","missense_variant","MODERATE","Rv0851c",175,"p.Ser59Gly"]
["Rv0853c","rs157704753",949535,"T","C","synonymous_variant","LOW","pdc",1584,"p.Ala528Ala"]
["Rv0851c","rs157704761",951142,"C","A","upstream_gene_variant","MODIFIER","Rv0851c",-2674]
["Rv0851c","NA",952762,"G","C","upstream_gene_variant","MODIFIER","Rv0851c",-4294]
["Rv0881","rs157705243",979704,"G","C","missense_variant","MODERATE","Rv0881",343,"p.Gly115Arg"]
["Rv0884c","rs157727878",986463,"G","C","upstream_gene_variant","MODIFIER","serC",-3909]
["Rv0896","rs157705336",1000732,"A","G","missense_variant","MODERATE","gltA2",1261,"p.Thr421Ala"]
["Rv0913c","NA",1018028,"G","A","missense_variant","MODERATE","Rv0913c",698,"p.Pro233Leu"]
["Rv0919","rs157727887",1025106,"T","C","synonymous_variant","LOW","Rv0919",423,"p.Phe141Phe"]
["Rv0927c","rs157705518",1034238,"A","G","synonymous_variant","LOW","Rv0927c",394,"p.Leu132Leu"]
["Rv0945","rs157705655",1054784,"C","G","missense_variant","MODERATE","Rv0945",538,"p.Arg180Gly"]
["Rv0951","rs157705682",1062745,"T","C","missense_variant","MODERATE","sucC",782,"p.Val261Ala"]
["Rv0952","rs157705685",1063765,"G","A","missense_variant","MODERATE","sucD",626,"p.Arg209Lys"]
["Rv0956","rs157727903",1068151,"T","C","synonymous_variant","LOW","purN",591,"p.His197His"]
["Rv0957","rs157705713",1068432,"A","G","synonymous_variant","LOW","purH",228,"p.Pro76Pro"]
["Rv0958","rs157727913",1070702,"T","C","missense_variant","MODERATE","Rv0958",820,"p.Ser274Pro"]
["Rv0983","rs157706128",1100234,"T","C","missense_variant","MODERATE","pepD",1169,"p.Leu390Pro"]
["Rv0989c","rs157706176",1106422,"T","C","missense_variant","MODERATE","grcC2",961,"p.Ile321Val"]
["Rv0993","rs157706191",1109975,"A","G","missense_variant","MODERATE","galU",704,"p.Gln235Arg"]
["Rv0994","rs157706195",1110956,"T","G","missense_variant","MODERATE","moeA1",688,"p.Cys230Gly"]
["Rv1005c","rs157706245",1123597,"A","G","start_lost","HIGH","pabB",2,"p.Leu1?"]
["Rv1023","rs157706306",1144585,"A","G","missense_variant","MODERATE","eno",22,"p.Arg8Gly"]
["Rv1092c","rs157728097",1220570,"G","T","upstream_gene_variant","MODIFIER","coaA",-384]
["Rv1093","rs157706672",1220680,"T","C","missense_variant","MODERATE","glyA1",107,"p.Val36Ala"]
["Rv1092c","rs157706687",1224367,"T","C","upstream_gene_variant","MODIFIER","coaA",-4181]
["Rv1096","rs157706690",1225198,"C","T","missense_variant","MODERATE","Rv1096",814,"p.Pro272Ser"]
["Rv1121","NA",1244393,"C","G","synonymous_variant","LOW","zwf1",687,"p.Val229Val"]
["Rv1127c","rs157706817",1250340,"A","G","synonymous_variant","LOW","ppdK",1065,"p.Ala355Ala"]
["Rv1127c","rs157706818",1250357,"T","G","missense_variant","MODERATE","ppdK",1048,"p.Thr350Pro"]
["Rv1127c","rs157706822",1251199,"C","T","missense_variant","MODERATE","ppdK",206,"p.Gly69Glu"]
["Rv1130","rs157706843",1254562,"A","G","missense_variant","MODERATE","prpD",8,"p.Asp3Gly"]
["Rv1130","NA",1254582,"T","C","missense_variant","MODERATE","prpD",28,"p.Phe10Leu"]
["Rv1130","rs157706849",1256012,"G","T","synonymous_variant","LOW","prpD",1458,"p.Arg486Arg"]
["Rv1133c","NA",1260537,"C","T","synonymous_variant","LOW","metE",810,"p.Leu270Leu"]
["Rv1155","rs157706939",1281771,"T","C","missense_variant","MODERATE","Rv1155",343,"p.Ser115Pro"]
["Rv1161","NA",1288699,"G","C","missense_variant","MODERATE","narG",1372,"p.Val458Leu"]
["Rv1161","NA",1289789,"A","G","missense_variant","MODERATE","narG",2462,"p.Asp821Gly"]
["Rv1162","rs157707028",1292102,"A","G","synonymous_variant","LOW","narH",1038,"p.Pro346Pro"]
["Rv1164","NA",1294004,"C","T","missense_variant","MODERATE","narI",599,"p.Ala200Val"]
["Rv1178","rs157707082",1310316,"C","T","missense_variant","MODERATE","Rv1178",953,"p.Ala318Val"]
["Rv1201c","NA",1344741,"A","G","synonymous_variant","LOW","dapD",429,"p.Tyr143Tyr"]
["Rv1212c","NA",1355349,"C","T","missense_variant","MODERATE","glgA",313,"p.Val105Ile"]
["Rv1213","rs157707331",1355937,"C","T","synonymous_variant","LOW","glgC",102,"p.Phe34Phe"]
["Rv1223","rs157707391",1366736,"T","C","missense_variant","MODERATE","htrA",862,"p.Phe288Leu"]
["Rv1223","rs157707392",1367208,"G","A","missense_variant","MODERATE","htrA",1334,"p.Ser445Asn"]
["Rv1248c","rs157707513",1390089,"C","T","synonymous_variant","LOW","Rv1248c",2964,"p.Ala988Ala"]
["Rv1248c","rs157707515",1390763,"C","T","missense_variant","MODERATE","Rv1248c",2290,"p.Val764Met"]
["Rv1248c","NA",1393003,"T","G","missense_variant","MODERATE","Rv1248c",50,"p.Glu17Ala"]
["Rv1263","rs157707641",1411210,"T","G","synonymous_variant","LOW","amiB2",780,"p.Val260Val"]
["Rv1264","NA",1412503,"C","T","missense_variant","MODERATE","Rv1264",610,"p.Arg204Cys"]
["Rv1284","NA",1437438,"C","A","synonymous_variant","LOW","canA",115,"p.Arg39Arg"]
["Rv1286","NA",1439938,"C","T","synonymous_variant","LOW","cysN",1032,"p.Arg344Arg"]
["Rv1286","rs157707758",1440469,"C","G","synonymous_variant","LOW","cysN",1563,"p.Pro521Pro"]
["Rv1300","rs157707844",1457144,"C","T","missense_variant","MODERATE","hemK",580,"p.Arg194Cys"]
["Rv1304","NA",1460666,"C","T","synonymous_variant","LOW","atpB",423,"p.Val141Val"]
["Rv1307","NA",1462220,"G","C","synonymous_variant","LOW","atpH",378,"p.Val126Val"]
["Rv1319c","rs157728232",1480972,"T","C","synonymous_variant","LOW","Rv1319c",1530,"p.Glu510Glu"]
["Rv1320c","rs157707922",1482627,"T","C","missense_variant","MODERATE","Rv1320c",1591,"p.Thr531Ala"]
["Rv1326c","rs157707955",1490905,"A","G","missense_variant","MODERATE","glgB",1408,"p.Ser470Pro"]
["Rv1326c","rs157707956",1490911,"G","A","missense_variant","MODERATE","glgB",1402,"p.Pro468Ser"]
["Rv1326c","rs157707960",1492194,"T","C","missense_variant","MODERATE","glgB",119,"p.Asp40Gly"]
["Rv1327c","NA",1492605,"C","T","synonymous_variant","LOW","glgE",1821,"p.Ala607Ala"]
["Rv1328","NA",1496158,"A","G","missense_variant","MODERATE","glgP",1595,"p.Asp532Gly"]
["Rv1328","NA",1496289,"G","T","missense_variant","MODERATE","glgP",1726,"p.Val576Phe"]
["Rv1328","rs157707987",1496964,"G","T","missense_variant","MODERATE","glgP",2401,"p.Ala801Ser"]
["Rv1330c","rs157707994",1499274,"C","G","missense_variant","MODERATE","pncB1",1286,"p.Gly429Ala"]
["Rv1330c","NA",1499291,"C","T","synonymous_variant","LOW","pncB1",1269,"p.Gly423Gly"]
["Rv1333","NA",1501979,"G","A","synonymous_variant","LOW","Rv1333",381,"p.Thr127Thr"]
["Rv1355c","rs157708237",1523175,"A","C","synonymous_variant","LOW","moeY",858,"p.Ala286Ala"]
["Rv1355c","rs157708242",1523791,"A","G","missense_variant","MODERATE","moeY",242,"p.Leu81Pro"]
["Rv1373","rs157708331",1546703,"C","T","missense_variant","MODERATE","Rv1373",692,"p.Pro231Leu"]
["Rv1381","NA",1554752,"G","T","missense_variant","MODERATE","pyrC",565,"p.Val189Phe"]
["Rv1383","NA",1556323,"C","G","missense_variant","MODERATE","carA",353,"p.Ala118Gly"]
["Rv1384","rs157708420",1559562,"C","A","missense_variant","MODERATE","carB",2462,"p.Ala821Glu"]
["Rv1384","NA",1559596,"C","T","synonymous_variant","LOW","carB",2496,"p.His832His"]
["Rv1394c","rs157728271",1570566,"C","A","missense_variant","MODERATE","cyp132",404,"p.Arg135Leu"]
["Rv1393c","NA",1573968,"C","T","upstream_gene_variant","MODIFIER","Rv1393c",-4381]
["Rv1403c","rs157708559",1582051,"T","C","upstream_gene_variant","MODIFIER","Rv1403c",-1629]
["Rv1409","rs157708572",1585283,"A","C","missense_variant","MODERATE","ribG",90,"p.Lys30Asn"]
["Rv1409","rs157708573",1585404,"G","A","missense_variant","MODERATE","ribG",211,"p.Ala71Thr"]
["Rv1412","rs157708581",1588899,"G","T","synonymous_variant","LOW","ribC",333,"p.Ala111Ala"]
["Rv1446c","rs157728296",1624791,"C","G","missense_variant","MODERATE","opcA",575,"p.Arg192Pro"]
["Rv1448c","rs157708779",1627351,"T","C","missense_variant","MODERATE","tal",730,"p.Thr244Ala"]
["Rv1449c","rs157708833",1630148,"A","C","missense_variant","MODERATE","tkt",52,"p.Tyr18Asp"]
["Rv1449c","NA",1634633,"A","T","upstream_gene_variant","MODIFIER","tkt",-4434]
["Rv1449c","NA",1634636,"T","A","upstream_gene_variant","MODIFIER","tkt",-4437]
["Rv1451","rs157708857",1635230,"G","A","missense_variant","MODERATE","ctaB",202,"p.Ala68Thr"]
["Rv1454c","rs157708882",1640442,"C","T","synonymous_variant","LOW","qor",219,"p.Gly73Gly"]
["Rv1497","rs157709137",1688300,"T","C","synonymous_variant","LOW","lipL",360,"p.Phe120Phe"]
["Rv1498c","rs157709151",1689349,"C","T","missense_variant","MODERATE","Rv1498c",572,"p.Arg191His"]
["Rv1524","rs157709332",1719391,"C","T","synonymous_variant","LOW","Rv1524",666,"p.Phe222Phe"]
["Rv1552","rs157709513",1759252,"G","T","synonymous_variant","LOW","frdA",1572,"p.Ser524Ser"]
["Rv1554","rs157709529",1760292,"A","G","missense_variant","MODERATE","frdC",118,"p.Met40Val"]
["Rv1555","rs157709537",1760923,"T","C","synonymous_variant","LOW","frdD",372,"p.Thr124Thr"]
["Rv1570","rs157728414",1778430,"T","C","missense_variant","MODERATE","bioD",572,"p.Met191Thr"]
["Rv1596","rs157709720",1797577,"A","G","missense_variant","MODERATE","nadC",190,"p.Asn64Asp"]
["Rv1602","rs157709786",1803265,"G","A","missense_variant","MODERATE","hisH",602,"p.Ser201Asn"]
["Rv1604","NA",1804248,"G","A","synonymous_variant","LOW","impA",210,"p.Glu70Glu"]
["Rv1604","NA",1804315,"T","C","missense_variant","MODERATE","impA",277,"p.Tyr93His"]
["Rv1604","rs157709847",1804409,"C","A","missense_variant","MODERATE","impA",371,"p.Pro124Gln"]
["Rv1604","NA",1804790,"C","T","missense_variant","MODERATE","impA",752,"p.Pro251Leu"]
["Rv1605","rs157728506",1805214,"C","T","missense_variant","MODERATE","hisF",362,"p.Pro121Leu"]
["Rv1622c","NA",1823384,"G","C","synonymous_variant","LOW","cydB",1017,"p.Thr339Thr"]
["Rv1625c","rs157709937",1827805,"C","T","synonymous_variant","LOW","cya",141,"p.Val47Val"]
["Rv1621c","NA",1828000,"G","A","upstream_gene_variant","MODIFIER","cydD",-4727]
["Rv1647","rs157728525",1856777,"G","C","missense_variant","MODERATE","Rv1647",4,"p.Ala2Pro"]
["Rv1659","rs157710316",1872959,"A","G","synonymous_variant","LOW","argH",321,"p.Arg107Arg"]
["Rv1666c","rs157710443",1893473,"G","A","synonymous_variant","LOW","cyp139",90,"p.Thr30Thr"]
["Rv1699","rs157710569",1924959,"T","C","synonymous_variant","LOW","pyrG",1131,"p.Gly377Gly"]
["Rv1703c","rs157710594",1933988,"G","A","upstream_gene_variant","MODIFIER","Rv1703c",-4267]
["Rv1726","NA",1952827,"C","T","missense_variant","MODERATE","Rv1726",976,"p.His326Tyr"]
["Rv1736c","NA",1963050,"T","C","synonymous_variant","LOW","narX",1137,"p.Arg379Arg"]
["Rv1736c","rs157710811",1963957,"T","C","missense_variant","MODERATE","narX",230,"p.Asp77Gly"]
["Rv1736c","NA",1964030,"C","G","missense_variant","MODERATE","narX",157,"p.Asp53His"]
["Rv1745c","NA",1971461,"G","T","stop_gained","HIGH","idi",531,"p.Tyr177*"]
["Rv1745c","rs157710841",1971725,"G","C","synonymous_variant","LOW","idi",267,"p.Arg89Arg"]
["Rv1751","NA",1980552,"T","C","missense_variant","MODERATE","Rv1751",932,"p.Met311Thr"]
["Rv1777","NA",2011627,"C","G","missense_variant","MODERATE","cyp144",972,"p.His324Gln"]
["Rv1781c","rs157711198",2017291,"T","C","synonymous_variant","LOW","malQ",186,"p.Arg62Arg"]
["Rv1812c","rs157711396",2055271,"A","G","missense_variant","MODERATE","Rv1812c",89,"p.Leu30Pro"]
["Rv1826","rs157711464",2072190,"A","C","missense_variant","MODERATE","gcvH",239,"p.Glu80Ala"]
["Rv1832","NA",2076520,"T","C","missense_variant","MODERATE","gcvB",644,"p.Val215Ala"]
["Rv1832","rs157711477",2077218,"A","G","missense_variant","MODERATE","gcvB",1342,"p.Thr448Ala"]
["Rv1832","NA",2078318,"C","T","synonymous_variant","LOW","gcvB",2442,"p.Val814Val"]
["Rv1843c","NA",2092688,"G","A","synonymous_variant","LOW","guaB1",1011,"p.Gly337Gly"]
["Rv1851","NA",2099793,"A","T","missense_variant","MODERATE","ureF",100,"p.Met34Leu"]
["Rv1856c","NA",2104270,"C","T","missense_variant","MODERATE","Rv1856c",554,"p.Arg185His"]
["Rv1855c","rs157711728",2108890,"A","C","upstream_gene_variant","MODIFIER","Rv1855c",-4783]
["Rv1856c","NA",2109474,"C","T","upstream_gene_variant","MODIFIER","Rv1856c",-4651]
["Rv1862","rs157711736",2110365,"A","C","synonymous_variant","LOW","adhA",822,"p.Thr274Thr"]
["Rv1869c","NA",2120777,"C","T","upstream_gene_variant","MODIFIER","Rv1869c",-82]
["Rv1872c","rs157711783",2122625,"A","G","missense_variant","MODERATE","lldD2",527,"p.Val176Ala"]
["Rv1872c","rs157728739",2122976,"C","G","missense_variant","MODERATE","lldD2",176,"p.Gly59Ala"]
["Rv1869c","rs157711792",2123169,"T","G","upstream_gene_variant","MODIFIER","Rv1869c",-2474]
["Rv1878","rs157711812",2128372,"A","G","synonymous_variant","LOW","glnA3",351,"p.Thr117Thr"]
["Rv1878","NA",2128844,"G","A","missense_variant","MODERATE","glnA3",823,"p.Ala275Thr"]
["Rv1878","rs157711814",2128870,"A","G","synonymous_variant","LOW","glnA3",849,"p.Leu283Leu"]
["Rv1878","rs157711817",2129281,"C","A","synonymous_variant","LOW","glnA3",1260,"p.Ala420Ala"]
["Rv1876","rs157711819",2130529,"A","G","downstream_gene_variant","MODIFIER","bfrA","*4710"]
["Rv1880c","rs157711843",2135870,"T","C","upstream_gene_variant","MODIFIER","cyp140",-4013]
["Rv1895","NA",2143328,"G","C","missense_variant","MODERATE","Rv1895",808,"p.Val270Leu"]
["Rv1900c","rs157711936",2147022,"A","C","missense_variant","MODERATE","lipJ",612,"p.Ile204Met"]
["Rv1900c","NA",2147125,"C","T","missense_variant","MODERATE","lipJ",509,"p.Arg170Gln"]
["Rv1905c","rs157712002",2151678,"G","T","missense_variant","MODERATE","aao",718,"p.Pro240Thr"]
["Rv1915","rs157712035",2160998,"G","A","missense_variant","MODERATE","aceAa",536,"p.Gly179Asp"]
["Rv1923","rs157712102",2175390,"G","A","missense_variant","MODERATE","lipD",218,"p.Gly73Asp"]
["Rv1923","NA",2175713,"G","A","missense_variant","MODERATE","lipD",541,"p.Asp181Asn"]
["Rv2007c","rs157728839",2260100,"C","T","upstream_gene_variant","MODIFIER","fdxA",-3672]
["Rv2007c","rs157728840",2260525,"C","T","upstream_gene_variant","MODIFIER","fdxA",-4097]
["Rv2043c","NA",2289073,"G","C","missense_variant","MODERATE","pncA",169,"p.His57Asp"]
["Rv2062c","NA",2320530,"A","G","missense_variant","MODERATE","cobN",224,"p.Val75Ala"]
["Rv2071c","rs157713122",2328543,"T","C","missense_variant","MODERATE","cobM",435,"p.Ile145Met"]
["Rv2071c","NA",2328594,"G","A","synonymous_variant","LOW","cobM",384,"p.Gly128Gly"]
["Rv2071c","rs157713123",2328627,"C","T","synonymous_variant","LOW","cobM",351,"p.Ala117Ala"]
["Rv2072c","rs157728898",2329466,"C","T","synonymous_variant","LOW","cobL",681,"p.Pro227Pro"]
["Rv2072c","rs157713128",2329533,"A","G","missense_variant","MODERATE","cobL",614,"p.Leu205Pro"]
["Rv2109c","rs157713474",2369186,"G","C","missense_variant","MODERATE","prcA",544,"p.Arg182Gly"]
["Rv2109c","rs157713478",2369326,"C","G","missense_variant","MODERATE","prcA",404,"p.Arg135Pro"]
["Rv2112c","rs157713533",2376425,"A","G","upstream_gene_variant","MODIFIER","dop",-3856]
["Rv2124c","rs157713595",2383814,"T","C","missense_variant","MODERATE","metH",2254,"p.Ile752Val"]
["Rv2124c","NA",2384763,"A","C","synonymous_variant","LOW","metH",1305,"p.Arg435Arg"]
["Rv2124c","rs157713638",2390299,"A","G","upstream_gene_variant","MODIFIER","metH",-4232]
["Rv2178c","rs157713846",2440926,"G","T","missense_variant","MODERATE","aroG",795,"p.Asp265Glu"]
["Rv2195","NA",2459234,"G","C","missense_variant","MODERATE","qcrA",843,"p.Met281Ile"]
["Rv2202c","rs157729030",2470591,"A","C","upstream_gene_variant","MODIFIER","adoK",-2564]
["Rv2208","rs157713979",2472956,"T","C","missense_variant","MODERATE","cobS",464,"p.Leu155Ser"]
["Rv2210c","NA",2475116,"G","A","synonymous_variant","LOW","ilvE",855,"p.Phe285Phe"]
["Rv2210c","NA",2475888,"T","G","missense_variant","MODERATE","ilvE",83,"p.Glu28Ala"]
["Rv2213","rs157714006",2478967,"C","G","missense_variant","MODERATE","pepB",630,"p.Phe210Leu"]
["Rv2217","NA",2484801,"A","G","missense_variant","MODERATE","lipB",218,"p.Asp73Gly"]
["Rv2236c","rs157729044",2509140,"G","C","missense_variant","MODERATE","cobD",236,"p.Ser79Cys"]
["Rv2236c","rs157729046",2509362,"G","A","missense_variant","MODERATE","cobD",14,"p.Thr5Ile"]
["Rv2251","rs157714160",2526974,"T","C","synonymous_variant","LOW","Rv2251",1410,"p.Pro470Pro"]
["Rv2249c","NA",2529299,"G","A","upstream_gene_variant","MODIFIER","glpD1",-4508]
["Rv2291","rs157714291",2563958,"A","C","missense_variant","MODERATE","sseB",785,"p.Glu262Ala"]
["Rv2332","rs157714483",2605293,"G","T","missense_variant","MODERATE","mez",186,"p.Glu62Asp"]
["Rv2332","NA",2606092,"A","C","missense_variant","MODERATE","mez",985,"p.Ile329Leu"]
["Rv2364c","NA",2646542,"G","A","synonymous_variant","LOW","era",132,"p.Ala44Ala"]
["Rv2388c","NA",2682593,"C","T","missense_variant","MODERATE","hemN",550,"p.Ala184Thr"]
["Rv2394","rs157714771",2688726,"T","C","synonymous_variant","LOW","ggtB",717,"p.Ala239Ala"]
["Rv2394","rs157714773",2689193,"G","A","missense_variant","MODERATE","ggtB",1184,"p.Arg395Gln"]
["Rv2404c","rs157714860",2703018,"G","T","synonymous_variant","LOW","lepA",231,"p.Gly77Gly"]
["Rv2419c","NA",2717306,"G","A","missense_variant","MODERATE","gpgP",494,"p.Ala165Val"]
["Rv2421c","NA",2718271,"C","T","missense_variant","MODERATE","nadD",538,"p.Gly180Ser"]
["Rv2435c","NA",2737017,"G","A","upstream_gene_variant","MODIFIER","Rv2435c",-4268]
["Rv2439c","rs157715041",2737572,"C","A","missense_variant","MODERATE","proB",676,"p.Ala226Ser"]
["Rv2438c","rs157715068",2740693,"T","C","upstream_gene_variant","MODIFIER","nadE",-3862]
["Rv2458","NA",2760147,"C","T","synonymous_variant","LOW","mmuM",369,"p.Arg123Arg"]
["Rv2458","rs157715142",2760152,"A","G","missense_variant","MODERATE","mmuM",374,"p.Tyr125Cys"]
["Rv2465c","NA",2767842,"T","C","synonymous_variant","LOW","rpiB",318,"p.Gln106Gln"]
["Rv2471","NA",2774180,"G","C","missense_variant","MODERATE","aglA",617,"p.Trp206Ser"]
["Rv2476c","rs157715344",2779136,"T","C","missense_variant","MODERATE","gdh",3127,"p.Ser1043Gly"]
["Rv2495c","NA",2809318,"G","A","missense_variant","MODERATE","bkdC",622,"p.Arg208Trp"]
["Rv2495c","rs157729155",2809621,"T","C","missense_variant","MODERATE","bkdC",319,"p.Thr107Ala"]
["Rv2496c","NA",2810382,"C","T","missense_variant","MODERATE","bkdB",601,"p.Gly201Ser"]
["Rv2498c","NA",2812742,"A","G","synonymous_variant","LOW","citE",435,"p.Gly145Gly"]
["Rv2509","rs157715755",2825466,"G","A","synonymous_variant","LOW","Rv2509",789,"p.Lys263Lys"]
["Rv2531c","rs157715997",2855259,"A","G","synonymous_variant","LOW","Rv2531c",2523,"p.Ala841Ala"]
["Rv2531c","NA",2857635,"G","A","synonymous_variant","LOW","Rv2531c",147,"p.Asp49Asp"]
["Rv2579","NA",2904516,"G","A","missense_variant","MODERATE","dhaA",878,"p.Arg293Gln"]
["Rv2584c","rs157716312",2910461,"G","T","missense_variant","MODERATE","apt",440,"p.Ala147Glu"]
["Rv2672","rs157716846",2988630,"C","G","missense_variant","MODERATE","Rv2672",949,"p.His317Asp"]
["Rv2678c","rs157716866",2994187,"T","C","synonymous_variant","LOW","hemE",876,"p.Leu292Leu"]
["Rv2702","rs157716997",3017465,"T","C","missense_variant","MODERATE","ppgK",608,"p.Ile203Thr"]
["Rv2747","NA",3059270,"A","G","synonymous_variant","LOW","argA",9,"p.Glu3Glu"]
["Rv2773c","NA",3081731,"G","A","missense_variant","MODERATE","dapB",611,"p.Thr204Ile"]
["Rv2773c","NA",3081928,"G","A","synonymous_variant","LOW","dapB",414,"p.Asp138Asp"]
["Rv2773c","rs157717333",3086788,"T","C","upstream_gene_variant","MODIFIER","dapB",-4447]
["Rv2781c","rs157717339",3088625,"A","G","synonymous_variant","LOW","Rv2781c",360,"p.Val120Val"]
["Rv2786c","NA",3098939,"G","C","upstream_gene_variant","MODIFIER","ribF",-4039]
["Rv2849c","NA",3157785,"C","G","missense_variant","MODERATE","cobO",360,"p.Trp120Cys"]
["Rv2850c","NA",3158719,"C","T","missense_variant","MODERATE","Rv2850c",1336,"p.Gly446Ser"]
["Rv2850c","NA",3159237,"C","T","missense_variant","MODERATE","Rv2850c",818,"p.Arg273Gln"]
["Rv2858c","NA",3170493,"C","G","synonymous_variant","LOW","aldC",231,"p.Pro77Pro"]
["Rv2874","rs157729680",3186860,"T","G","missense_variant","MODERATE","dipZ",2014,"p.Tyr672Asp"]
["Rv2918c","NA",3229201,"G","A","missense_variant","MODERATE","glnD",1480,"p.Arg494Trp"]
["Rv2918c","NA",3230013,"A","C","missense_variant","MODERATE","glnD",668,"p.Leu223Arg"]
["Rv2951c","rs157719572",3308606,"G","A","upstream_gene_variant","MODIFIER","Rv2951c",-4358]
["Rv2958c","NA",3310875,"G","A","stop_gained","HIGH","Rv2958c",1126,"p.Arg376*"]
["Rv2958c","rs157719581",3311119,"G","C","synonymous_variant","LOW","Rv2958c",882,"p.Val294Val"]
["Rv2959c","NA",3312728,"C","T","synonymous_variant","LOW","Rv2959c",111,"p.Val37Val"]
["Rv2962c","rs157719604",3314412,"A","G","synonymous_variant","LOW","Rv2962c",711,"p.Ala237Ala"]
["Rv2967c","NA",3320554,"G","A","synonymous_variant","LOW","pca",2493,"p.Ser831Ser"]
["Rv2971","rs157719642",3326554,"A","C","missense_variant","MODERATE","Rv2971",454,"p.Asn152His"]
["Rv2988c","rs157719694",3345047,"G","T","missense_variant","MODERATE","leuC",1029,"p.Asp343Glu"]
["Rv2995c","rs157719729",3352919,"A","G","missense_variant","MODERATE","leuB",550,"p.Phe184Leu"]
["Rv2995c","rs157719730",3352932,"C","G","synonymous_variant","LOW","leuB",537,"p.Thr179Thr"]
["Rv2997","NA",3355417,"T","A","missense_variant","MODERATE","Rv2997",319,"p.Cys107Ser"]
["Rv2997","rs157719746",3356517,"T","C","synonymous_variant","LOW","Rv2997",1419,"p.Pro473Pro"]
["Rv3001c","rs157719774",3363338,"A","G","upstream_gene_variant","MODIFIER","ilvC",-2752]
["Rv3007c","rs157719828",3369869,"G","T","upstream_gene_variant","MODIFIER","Rv3007c",-3419]
["Rv3027c","NA",3386903,"A","G","missense_variant","MODERATE","Rv3027c",17,"p.Val6Ala"]
["Rv3028c","NA",3387097,"G","A","missense_variant","MODERATE","fixB",935,"p.Ala312Val"]
["Rv3029c","NA",3388682,"T","C","synonymous_variant","LOW","fixA",189,"p.Val63Val"]
["Rv3042c","rs157720235",3402816,"C","T","missense_variant","MODERATE","serB2",347,"p.Gly116Glu"]
["Rv3042c","NA",3402955,"C","A","missense_variant","MODERATE","serB2",208,"p.Ala70Ser"]
["Rv3043c","rs157720243",3404376,"C","G","synonymous_variant","LOW","ctaD",546,"p.Thr182Thr"]
["Rv3049c","rs157729786",3415332,"A","G","upstream_gene_variant","MODIFIER","Rv3049c",-4249]
["Rv3059","rs157720360",3420442,"C","T","synonymous_variant","LOW","cyp136",951,"p.Tyr317Tyr"]
["Rv3059","rs157720361",3420825,"A","G","missense_variant","MODERATE","cyp136",1334,"p.Asp445Gly"]
["Rv3077","rs157729807",3440464,"T","G","synonymous_variant","LOW","Rv3077",924,"p.Arg308Arg"]
["Rv3077","rs157729808",3440468,"G","C","missense_variant","MODERATE","Rv3077",928,"p.Gly310Arg"]
["Rv3077","rs157729809",3440542,"A","G","synonymous_variant","LOW","Rv3077",1002,"p.Gly334Gly"]
["Rv3083","NA",3448783,"G","A","missense_variant","MODERATE","Rv3083",280,"p.Val94Ile"]
["Rv3084","rs157720557",3450725,"T","C","synonymous_variant","LOW","lipR",729,"p.Val243Val"]
["Rv3093c","rs157729834",3462135,"G","C","missense_variant","MODERATE","Rv3093c",630,"p.Cys210Trp"]
["Rv3106","NA",3474427,"G","A","missense_variant","MODERATE","fprA",421,"p.Val141Ile"]
["Rv3106","rs157720724",3475159,"A","G","missense_variant","MODERATE","fprA",1153,"p.Asn385Asp"]
["Rv3112","rs157720741",3479798,"G","A","synonymous_variant","LOW","moaD1",99,"p.Gly33Gly"]
["Rv3113","NA",3480106,"G","C","missense_variant","MODERATE","Rv3113",33,"p.Trp11Cys"]
["Rv3113","rs157729836",3480474,"G","A","missense_variant","MODERATE","Rv3113",401,"p.Gly134Glu"]
["Rv3113","NA",3480645,"T","G","missense_variant","MODERATE","Rv3113",572,"p.Leu191Arg"]
["Rv3137","rs157720822",3503895,"C","T","missense_variant","MODERATE","Rv3137",503,"p.Pro168Leu"]
["Rv3138","NA",3504523,"G","A","missense_variant","MODERATE","pflA",329,"p.Ser110Asn"]
["Rv3138","rs157720829",3505005,"A","C","missense_variant","MODERATE","pflA",811,"p.Thr271Pro"]
["Rv3146","NA",3512082,"A","C","synonymous_variant","LOW","nuoB",6,"p.Gly2Gly"]
["Rv3148","NA",3513724,"C","T","synonymous_variant","LOW","nuoD",387,"p.Asn129Asn"]
["Rv3149","NA",3515025,"C","T","synonymous_variant","LOW","nuoE",369,"p.Gly123Gly"]
["Rv3151","NA",3517567,"C","T","synonymous_variant","LOW","nuoG",822,"p.Asn274Asn"]
["Rv3151","rs157729853",3518167,"A","G","missense_variant","MODERATE","nuoG",1422,"p.Ile474Met"]
["Rv3151","rs157720873",3518555,"A","G","missense_variant","MODERATE","nuoG",1810,"p.Thr604Ala"]
["Rv3153","rs157720884",3521044,"A","G","missense_variant","MODERATE","nuoI",538,"p.Thr180Ala"]
["Rv3157","NA",3525557,"G","A","missense_variant","MODERATE","nuoM",1426,"p.Val476Ile"]
["Rv3161c","rs157720933",3530955,"C","G","missense_variant","MODERATE","Rv3161c",184,"p.Val62Leu"]
["Rv3174","rs157721047",3542163,"T","C","missense_variant","MODERATE","Rv3174",26,"p.Val9Ala"]
["Rv3174","NA",3542764,"G","C","synonymous_variant","LOW","Rv3174",627,"p.Leu209Leu"]
["Rv3199c","rs157721167",3571834,"T","G","missense_variant","MODERATE","nudC",710,"p.Gln237Pro"]
["Rv3225c","NA",3601528,"C","T","missense_variant","MODERATE","Rv3225c",913,"p.Ala305Thr"]
["Rv3227","NA",3603825,"G","A","missense_variant","MODERATE","aroA",449,"p.Arg150His"]
["Rv3230c","NA",3607942,"G","A","missense_variant","MODERATE","Rv3230c",313,"p.Arg105Cys"]
["Rv3248c","NA",3629083,"C","T","missense_variant","MODERATE","sahH",565,"p.Val189Ile"]
["Rv3257c","rs157721673",3638093,"G","A","missense_variant","MODERATE","pmmA",617,"p.Ser206Leu"]
["Rv3266c","rs157721708",3647041,"A","G","missense_variant","MODERATE","rmlD",769,"p.Ser257Pro"]
["Rv3273","NA",3655353,"C","T","synonymous_variant","LOW","Rv3273",717,"p.Phe239Phe"]
["Rv3275c","rs157721966",3658266,"C","G","missense_variant","MODERATE","purE",373,"p.Gly125Arg"]
["Rv3279c","rs157722056",3661382,"C","T","missense_variant","MODERATE","birA",631,"p.Asp211Asn"]
["Rv3293","NA",3674418,"G","T","missense_variant","MODERATE","pcd",817,"p.Gly273Cys"]
["Rv3299c","NA",3685354,"C","T","missense_variant","MODERATE","atsB",610,"p.Gly204Ser"]
["Rv3303c","rs157722186",3689523,"G","T","stop_gained","HIGH","lpdA",1416,"p.Cys472*"]
["Rv3303c","rs157722187",3690016,"A","G","missense_variant","MODERATE","lpdA",923,"p.Leu308Ser"]
["Rv3303c","NA",3690854,"T","C","missense_variant","MODERATE","lpdA",85,"p.Thr29Ala"]
["Rv3306c","rs157722201",3693681,"A","C","synonymous_variant","LOW","amiB1",309,"p.Ala103Ala"]
["Rv3308","rs157722207",3696181,"A","G","missense_variant","MODERATE","pmmB",1318,"p.Ser440Gly"]
["Rv3309c","NA",3700355,"A","G","upstream_gene_variant","MODIFIER","upp",-3262]
["Rv3314c","rs157722232",3702543,"G","A","missense_variant","MODERATE","deoA",925,"p.Arg309Trp"]
["Rv3317","rs157722236",3704596,"G","C","missense_variant","MODERATE","sdhD",160,"p.Val54Leu"]
["Rv3318","rs157722239",3705098,"G","A","synonymous_variant","LOW","sdhA",99,"p.Val33Val"]
["Rv3318","NA",3705482,"G","A","synonymous_variant","LOW","sdhA",483,"p.Glu161Glu"]
["Rv3319","NA",3706876,"C","G","missense_variant","MODERATE","sdhB",105,"p.Asp35Glu"]
["Rv3329","NA",3714572,"C","T","synonymous_variant","LOW","Rv3329",181,"p.Leu61Leu"]
["Rv3329","rs157722280",3714757,"A","C","missense_variant","MODERATE","Rv3329",366,"p.Gln122His"]
["Rv3329","NA",3715681,"C","T","synonymous_variant","LOW","Rv3329",1290,"p.Asp430Asp"]
["Rv3356c","NA",3770588,"T","G","missense_variant","MODERATE","folD",62,"p.Gln21Pro"]
["Rv3359","rs157730136",3771628,"A","C","synonymous_variant","LOW","Rv3359",285,"p.Ile95Ile"]
["Rv3377c","NA",3791135,"T","C","missense_variant","MODERATE","Rv3377c",1219,"p.Ile407Val"]
["Rv3378c","NA",3792712,"C","T","synonymous_variant","LOW","Rv3378c",537,"p.Thr179Thr"]
["Rv3379c","NA",3794281,"C","T","missense_variant","MODERATE","dxs2",587,"p.Cys196Tyr"]
["Rv3389c","NA",3804277,"G","A","missense_variant","MODERATE","htdY",515,"p.Pro172Leu"]
["Rv3396c","NA",3814058,"G","A","synonymous_variant","LOW","guaA",21,"p.Ile7Ile"]
["Rv3410c","rs157723393",3829770,"T","C","synonymous_variant","LOW","guaB3",141,"p.Pro47Pro"]
["Rv3411c","rs157723396",3830695,"A","G","synonymous_variant","LOW","guaB2",825,"p.Ala275Ala"]
["Rv3449","rs157723663",3870225,"C","T","synonymous_variant","LOW","mycP4",474,"p.Ile158Ile"]
["Rv3468c","NA",3885122,"G","A","synonymous_variant","LOW","Rv3468c",948,"p.Asn316Asn"]
["Rv3468c","rs157723871",3885886,"T","C","missense_variant","MODERATE","Rv3468c",184,"p.Ile62Val"]
["Rv3502c","NA",3921504,"C","G","synonymous_variant","LOW","Rv3502c",537,"p.Ala179Ala"]
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["Rv3538","NA",3977910,"G","A","synonymous_variant","LOW","Rv3538",849,"p.Leu283Leu"]
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["Rv3551","rs157724311",3989914,"G","T","missense_variant","MODERATE","Rv3551",19,"p.Ala7Ser"]
["Rv3559c","rs157724358",3999774,"G","A","missense_variant","MODERATE","Rv3559c",662,"p.Ala221Val"]
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["Rv3570c","rs157724503",4012219,"T","C","missense_variant","MODERATE","hsaA",52,"p.Asn18Asp"]
["Rv3579c","rs157724537",4021489,"T","G","missense_variant","MODERATE","Rv3579c",905,"p.Glu302Ala"]
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["Rv3581c","rs157724546",4024273,"T","C","synonymous_variant","LOW","ispF",75,"p.Val25Val"]
["Rv3582c","NA",4024766,"T","C","missense_variant","MODERATE","ispD",274,"p.Thr92Ala"]
["Rv3588c","NA",4030259,"A","G","missense_variant","MODERATE","canB",236,"p.Ile79Thr"]
["Rv3596c","NA",4038403,"A","G","synonymous_variant","LOW","clpC1",2302,"p.Leu768Leu"]
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["Rv3677c","rs157725083",4121675,"C","T","upstream_gene_variant","MODIFIER","Rv3677c",-3623]
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["Rv3712","NA",4157578,"G","A","missense_variant","MODERATE","Rv3712",598,"p.Gly200Ser"]
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["Rv3713","rs157725319",4158361,"A","G","synonymous_variant","LOW","cobQ2",135,"p.Pro45Pro"]
["Rv3725","NA",4171113,"T","C","synonymous_variant","LOW","Rv3725",900,"p.Ser300Ser"]
["Rv3726","rs157725370",4172173,"A","C","missense_variant","MODERATE","Rv3726",753,"p.Arg251Ser"]
["Rv3727","NA",4173210,"G","A","missense_variant","MODERATE","Rv3727",256,"p.Val86Met"]
["Rv3729","NA",4178792,"G","A","missense_variant","MODERATE","Rv3729",508,"p.Val170Ile"]
["Rv3729","rs157725394",4179089,"C","T","missense_variant","MODERATE","Rv3729",805,"p.Pro269Ser"]
["Rv3741c","rs157730402",4197189,"A","G","upstream_gene_variant","MODIFIER","Rv3741c",-4336]
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["Rv3854c","rs157726229",4329782,"G","A","upstream_gene_variant","MODIFIER","ethA",-2309]
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["Rv3859c","rs157726249",4336597,"C","A","upstream_gene_variant","MODIFIER","gltB",-516]
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["Rv3913","rs157726840",4401897,"A","G","missense_variant","MODERATE","trxB2",170,"p.Asp57Gly"]

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["Rv0071","NA",80133,"C","T","synonymous_variant","LOW","Rv0071",648,"p.Pro216Pro"]
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["Rv0641","NA",735865,"A","G","missense_variant","MODERATE","rplA",349,"p.Thr117Ala"]
["Rv0667","rs157703551",763031,"T","C","synonymous_variant","LOW","rpoB",3225,"p.Ala1075Ala"]
["Rv0670","rs157703566",767414,"G","A","upstream_gene_variant","MODIFIER","end",-2378]
["Rv0670","NA",770388,"G","A","synonymous_variant","LOW","end",597,"p.Ala199Ala"]
["Rv0684","rs157703658",782997,"G","A","synonymous_variant","LOW","fusA1",513,"p.Ala171Ala"]
["Rv0722","NA",815103,"C","T","synonymous_variant","LOW","rpmD",111,"p.Arg37Arg"]
["Rv0723","rs157703916",815236,"T","C","missense_variant","MODERATE","rplO",47,"p.Ile16Thr"]
["Rv0861c","NA",959379,"A","G","missense_variant","MODERATE","ercc3",773,"p.Val258Ala"]
["Rv0938","rs157705584",1047165,"T","C","missense_variant","MODERATE","ligD",1030,"p.Cys344Arg"]
["Rv0938","NA",1047827,"C","T","synonymous_variant","LOW","ligD",1692,"p.Leu564Leu"]
["Rv0944","rs157705654",1054136,"C","T","synonymous_variant","LOW","Rv0944",372,"p.Thr124Thr"]
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["Rv1108c","NA",1234657,"G","A","synonymous_variant","LOW","xseA",804,"p.Asp268Asp"]
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["Rv1253","rs157707586",1400396,"A","G","missense_variant","MODERATE","deaD",427,"p.Met143Val"]
["Rv1297","rs157707838",1454811,"C","T","synonymous_variant","LOW","rho",1608,"p.Asn536Asn"]
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["Rv1388","rs157708449",1563717,"C","T","synonymous_variant","LOW","mihF",24,"p.Val8Val"]
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["Rv1649","rs157710112",1859559,"C","A","missense_variant","MODERATE","pheS",827,"p.Ala276Asp"]
["Rv1650","rs157710115",1860392,"C","T","missense_variant","MODERATE","pheT",635,"p.Ala212Val"]
["Rv1689","rs157710530",1914570,"A","C","synonymous_variant","LOW","tyrS",969,"p.Ala323Ala"]
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["Rv2090","rs157713260",2348446,"C","G","missense_variant","MODERATE","Rv2090",1074,"p.Phe358Leu"]
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["Rv2101","rs157713362",2361604,"C","G","synonymous_variant","LOW","helZ",1365,"p.Val455Val"]
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["Rv2572c","rs157716260",2896260,"G","A","missense_variant","MODERATE","aspS",1544,"p.Ala515Val"]
["Rv2582","NA",2907009,"G","T","missense_variant","MODERATE","ppiB",196,"p.Val66Phe"]
["Rv2592c","rs157716363",2923391,"T","C","synonymous_variant","LOW","ruvB",843,"p.Pro281Pro"]
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["Rv2845c","NA",3152257,"C","T","missense_variant","MODERATE","proS",694,"p.Ala232Thr"]
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["Rv2889c","NA",3198332,"G","A","missense_variant","MODERATE","tsf",776,"p.Thr259Met"]
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["Rv3202c","rs157721187",3577958,"A","G","missense_variant","MODERATE","Rv3202c",2243,"p.Val748Ala"]
["Rv3204","rs157721222",3581414,"A","G","missense_variant","MODERATE","Rv3204",100,"p.Thr34Ala"]
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["Rv3296","NA",3679226,"G","A","missense_variant","MODERATE","lhr",2452,"p.Asp818Asn"]
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["Rv3459c","rs157723794",3879288,"C","A","missense_variant","MODERATE","rpsK",405,"p.Lys135Asn"]
["Rv3585","rs157724558",4026899,"G","A","synonymous_variant","LOW","radA",456,"p.Gln152Gln"]
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["Rv3731","rs157725404",4182695,"G","A","missense_variant","MODERATE","ligC",938,"p.Arg313His"]
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["Rv0755c","rs157727736",848407,"C","T","missense_variant","MODERATE","PPE12",1634,"p.Arg545Lys"]
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["Rv0834c","rs157727850",932252,"C","A","upstream_gene_variant","MODIFIER","PE_PGRS14",-1767]
["Rv0834c","rs157704672",934230,"C","G","upstream_gene_variant","MODIFIER","PE_PGRS14",-3745]
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["Rv0834c","rs157704674",934611,"G","T","upstream_gene_variant","MODIFIER","PE_PGRS14",-4126]
["Rv0872c","NA",969906,"G","A","synonymous_variant","LOW","PE_PGRS15",339,"p.Leu113Leu"]
["Rv0978c","rs157728019",1093406,"A","G","synonymous_variant","LOW","PE_PGRS17",951,"p.Val317Val"]
["Rv1040c","rs157706416",1163134,"T","C","synonymous_variant","LOW","PE8",243,"p.Gly81Gly"]
["Rv1067c","NA",1190093,"A","C","missense_variant","MODERATE","PE_PGRS19",332,"p.Leu111Trp"]
["Rv1068c","NA",1191817,"A","C","missense_variant","MODERATE","PE_PGRS20",332,"p.Leu111Trp"]
["Rv1068c","NA",1191861,"T","C","synonymous_variant","LOW","PE_PGRS20",288,"p.Glu96Glu"]
["Rv1172c","rs157707057",1302283,"T","G","missense_variant","MODERATE","PE12",399,"p.Gln133His"]
["Rv1196","rs157707234",1340052,"G","T","missense_variant","MODERATE","PPE18",704,"p.Arg235Leu"]
["Rv1196","NA",1340173,"C","T","synonymous_variant","LOW","PPE18",825,"p.Ala275Ala"]
["Rv1196","NA",1340183,"C","G","missense_variant","MODERATE","PPE18",835,"p.Gln279Glu"]
["Rv1361c","NA",1532728,"C","T","synonymous_variant","LOW","PPE19",906,"p.Ser302Ser"]
["Rv1386","NA",1561411,"G","A","upstream_gene_variant","MODIFIER","PE15",-53]
["Rv1387","NA",1561903,"A","C","synonymous_variant","LOW","PPE20",135,"p.Ser45Ser"]
["Rv1387","NA",1562049,"T","C","missense_variant","MODERATE","PPE20",281,"p.Val94Ala"]
["Rv1396c","rs157708505",1573660,"T","G","missense_variant","MODERATE","PE_PGRS25",198,"p.Arg66Ser"]
["Rv1452c","NA",1638182,"C","T","synonymous_variant","LOW","PE_PGRS28",48,"p.Ser16Ser"]
["Rv1452c","NA",1638183,"G","A","missense_variant","MODERATE","PE_PGRS28",47,"p.Ser16Leu"]
["Rv1452c","NA",1638194,"G","C","synonymous_variant","LOW","PE_PGRS28",36,"p.Ala12Ala"]
["Rv1468c","NA",1660652,"G","T","upstream_gene_variant","MODIFIER","PE_PGRS29",-3931]
["Rv1468c","NA",1660653,"A","T","upstream_gene_variant","MODIFIER","PE_PGRS29",-3932]
["Rv1548c","rs157709484",1752561,"T","C","missense_variant","MODERATE","PPE21",773,"p.Asp258Gly"]
["Rv1705c","rs157710588",1931718,"G","C","missense_variant","MODERATE","PPE22",937,"p.Leu313Val"]
["Rv1753c","rs157728596",1983313,"T","G","missense_variant","MODERATE","PPE24",1463,"p.Asn488Thr"]
["Rv1790","NA",2028992,"C","T","missense_variant","MODERATE","PPE27",568,"p.Pro190Ser"]
["Rv1790","NA",2029189,"A","G","synonymous_variant","LOW","PPE27",765,"p.Pro255Pro"]
["Rv1800","rs157711295",2039884,"T","G","missense_variant","MODERATE","PPE28",432,"p.Cys144Trp"]
["Rv1800","rs157711296",2040209,"T","G","missense_variant","MODERATE","PPE28",757,"p.Phe253Val"]
["Rv1800","NA",2040960,"T","C","missense_variant","MODERATE","PPE28",1508,"p.Val503Ala"]
["Rv1803c","NA",2046581,"G","A","stop_gained","HIGH","PE_PGRS32",262,"p.Gln88*"]
["Rv1803c","rs157711351",2046859,"T","C","upstream_gene_variant","MODIFIER","PE_PGRS32",-17]
["Rv1807","rs157728685",2049065,"T","C","missense_variant","MODERATE","PPE31",668,"p.Phe223Ser"]
["Rv1807","rs157728686",2049097,"G","C","missense_variant","MODERATE","PPE31",700,"p.Val234Leu"]
["Rv1807","NA",2049495,"C","T","synonymous_variant","LOW","PPE31",1098,"p.Pro366Pro"]
["Rv1808","rs157711373",2050061,"A","G","synonymous_variant","LOW","PPE32",141,"p.Ser47Ser"]
["Rv1808","rs157711375",2050822,"G","C","missense_variant","MODERATE","PPE32",902,"p.Gly301Ala"]
["Rv1809","rs157728689",2051746,"T","C","synonymous_variant","LOW","PPE33",465,"p.Ala155Ala"]
["Rv1809","NA",2051843,"C","T","stop_gained","HIGH","PPE33",562,"p.Gln188*"]
["Rv1809","rs157711381",2052035,"G","T","missense_variant","MODERATE","PPE33",754,"p.Val252Leu"]
["Rv1809","rs157711383",2052687,"G","C","stop_lost&splice_region_variant","HIGH","PPE33",1406,"p.Ter469Serext*?"]
["Rv1840c","rs157711638",2093715,"T","C","upstream_gene_variant","MODIFIER","PE_PGRS34",-4197]
["Rv1917c","NA",2163060,"G","A","synonymous_variant","LOW","PPE34",4252,"p.Leu1418Leu"]
["Rv1917c","rs157728783",2165286,"A","C","missense_variant","MODERATE","PPE34",2026,"p.Ser676Ala"]
["Rv1918c","rs157712065",2167926,"A","G","missense_variant","MODERATE","PPE35",2687,"p.Leu896Ser"]
["Rv1918c","NA",2168011,"T","G","missense_variant","MODERATE","PPE35",2602,"p.Ser868Arg"]
["Rv1918c","NA",2168319,"G","A","missense_variant","MODERATE","PPE35",2294,"p.Thr765Ile"]
["Rv2123","NA",2381610,"T","C","synonymous_variant","LOW","PPE37",540,"p.Ser180Ser"]
["Rv2123","NA",2381633,"G","T","missense_variant","MODERATE","PPE37",563,"p.Ser188Ile"]
["Rv2126c","rs157728997",2387733,"T","C","synonymous_variant","LOW","PE_PGRS37",240,"p.Glu80Glu"]
["Rv2340c","rs157714552",2619271,"T","C","upstream_gene_variant","MODIFIER","PE_PGRS39",-363]
["Rv2396","NA",2692875,"G","A","missense_variant","MODERATE","PE_PGRS41",77,"p.Ser26Asn"]
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["Rv2608","rs157716408",2935886,"C","T","missense_variant","MODERATE","PPE42",841,"p.Pro281Ser"]
["Rv2741","rs157729330",3054081,"A","G","synonymous_variant","LOW","PE_PGRS47",168,"p.Gly56Gly"]
["Rv2741","rs157729333",3054321,"A","G","synonymous_variant","LOW","PE_PGRS47",408,"p.Gly136Gly"]
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["Rv2769c","rs157717289",3078178,"C","T","missense_variant","MODERATE","PE27",808,"p.Val270Met"]
["Rv2769c","rs157717294",3078826,"G","A","missense_variant","MODERATE","PE27",160,"p.Pro54Ser"]
["Rv2770c","rs157717305",3079877,"A","G","missense_variant","MODERATE","PPE44",581,"p.Phe194Ser"]
["Rv3018c","NA",3378095,"A","G","missense_variant","MODERATE","PPE46",149,"p.Val50Ala"]
["Rv3097c","rs157720699",3466919,"C","G","missense_variant","MODERATE","lipY",173,"p.Gly58Ala"]
["Rv3125c","NA",3491539,"G","A","missense_variant","MODERATE","PPE49",113,"p.Ala38Val"]
["Rv3144c","rs157720852",3510120,"T","G","missense_variant","MODERATE","PPE52",1198,"p.Lys400Gln"]
["Rv3159c","NA",3528552,"G","T","missense_variant","MODERATE","PPE53",612,"p.Asp204Glu"]
["Rv3343c","NA",3730466,"A","G","missense_variant","MODERATE","PPE54",6470,"p.Ile2157Thr"]
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["Rv3347c","NA",3749920,"G","A","missense_variant","MODERATE","PPE55",3265,"p.Pro1089Ser"]
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["Rv3347c","NA",3750193,"G","A","missense_variant","MODERATE","PPE55",2992,"p.Leu998Phe"]
["Rv3347c","NA",3750205,"C","T","missense_variant","MODERATE","PPE55",2980,"p.Asp994Asn"]
["Rv3347c","NA",3750210,"T","G","missense_variant","MODERATE","PPE55",2975,"p.Asn992Thr"]
["Rv3347c","rs157722649",3750407,"G","C","synonymous_variant","LOW","PPE55",2778,"p.Gly926Gly"]
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["Rv3347c","rs157722651",3750421,"T","C","missense_variant","MODERATE","PPE55",2764,"p.Ser922Gly"]
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["Rv3477","NA",3894169,"C","T","missense_variant","MODERATE","PE31",77,"p.Ala26Val"]
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["Rv3892c","rs157726517",4375628,"G","T","missense_variant","MODERATE","PPE69",56,"p.Thr19Lys"]

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["Rv0144","rs157699493",170907,"A","C","synonymous_variant","LOW","Rv0144",624,"p.Arg208Arg"]
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["Rv0576","rs157703028",670545,"G","A","missense_variant","MODERATE","Rv0576",698,"p.Arg233His"]
["Rv0601c","rs157703214",698968,"G","A","synonymous_variant","LOW","Rv0601c",27,"p.Gly9Gly"]
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["Rv0758","rs157704212",852606,"G","A","missense_variant","MODERATE","phoR",211,"p.Gly71Ser"]
["Rv0758","rs157704213",852607,"G","T","missense_variant","MODERATE","phoR",212,"p.Gly71Val"]
["Rv0758","rs157704215",852910,"C","T","missense_variant","MODERATE","phoR",515,"p.Pro172Leu"]
["Rv0818","rs157704589",911261,"T","C","missense_variant","MODERATE","Rv0818",290,"p.Leu97Pro"]
["Rv0823c","NA",916659,"A","G","missense_variant","MODERATE","Rv0823c",988,"p.Phe330Leu"]
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["Rv0823c","rs157704611",917259,"C","A","missense_variant","MODERATE","Rv0823c",388,"p.Gly130Cys"]
["Rv0844c","NA",940890,"C","G","missense_variant","MODERATE","narL",217,"p.Ala73Pro"]
["Rv0845","rs157704709",941845,"C","A","missense_variant","MODERATE","Rv0845",656,"p.Ala219Glu"]
["Rv0890c","rs157727881",990001,"G","C","missense_variant","MODERATE","Rv0890c",2596,"p.Pro866Ala"]
["Rv0891c","rs157705299",993346,"A","C","missense_variant","MODERATE","Rv0891c",110,"p.Val37Gly"]
["Rv0894","rs157705327",996982,"A","G","synonymous_variant","LOW","Rv0894",459,"p.Ala153Ala"]
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["Rv0981","rs157706114",1097023,"G","A","missense_variant","MODERATE","mprA",202,"p.Gly68Ser"]
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["Rv1028c","NA",1149128,"C","T","synonymous_variant","LOW","kdpD",2559,"p.Leu853Leu"]
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["Rv1167c","rs157707063",1302899,"A","G","upstream_gene_variant","MODIFIER","Rv1167c",-4207]
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["Rv1332","NA",1501225,"T","G","synonymous_variant","LOW","Rv1332",300,"p.Arg100Arg"]
["Rv1358","rs157708259",1526819,"C","A","synonymous_variant","LOW","Rv1358",208,"p.Arg70Arg"]
["Rv1358","NA",1527936,"A","C","missense_variant","MODERATE","Rv1358",1325,"p.Asp442Ala"]
["Rv1453","rs157728345",1639418,"A","G","synonymous_variant","LOW","Rv1453",1038,"p.Leu346Leu"]
["Rv1453","rs157708875",1639594,"C","A","missense_variant","MODERATE","Rv1453",1214,"p.Pro405Gln"]
["Rv1453","rs157728347",1639643,"T","C","synonymous_variant","LOW","Rv1453",1263,"p.Arg421Arg"]
["Rv1460","rs157708902",1646982,"C","T","missense_variant","MODERATE","Rv1460",797,"p.Ala266Val"]
["Rv1473A","NA",1662558,"T","C","missense_variant","MODERATE","Rv1473A",178,"p.Ser60Pro"]
["Rv1626","rs157709939",1828389,"C","T","synonymous_variant","LOW","Rv1626",210,"p.Arg70Arg"]
["Rv1675c","rs157710479",1900800,"A","G","missense_variant","MODERATE","cmr",176,"p.Val59Ala"]
["Rv1746","NA",1973110,"G","A","missense_variant","MODERATE","pknF",973,"p.Ala325Thr"]
["Rv1773c","rs157711171",2010614,"G","A","upstream_gene_variant","MODIFIER","Rv1773c",-2848]
["Rv1816","NA",2058282,"A","G","synonymous_variant","LOW","Rv1816",27,"p.Lys9Lys"]
["Rv1846c","rs157728724",2096186,"A","G","synonymous_variant","LOW","blaI",414,"p.Thr138Thr"]
["Rv1846c","NA",2096326,"C","A","missense_variant","MODERATE","blaI",274,"p.Asp92Tyr"]
["Rv1985c","rs157712394",2229801,"C","G","synonymous_variant","LOW","Rv1985c",102,"p.Pro34Pro"]
["Rv2017","rs157712609",2264782,"C","A","missense_variant","MODERATE","Rv2017",785,"p.Ala262Glu"]
["Rv2021c","NA",2271820,"A","G","upstream_gene_variant","MODIFIER","Rv2021c",-4710]
["Rv2027c","rs157712762",2274463,"A","C","missense_variant","MODERATE","dosT",46,"p.Leu16Val"]
["Rv2088","rs157713245",2345037,"C","A","synonymous_variant","LOW","pknJ",627,"p.Leu209Leu"]
["Rv2160A","rs157713767",2421816,"A","G","missense_variant","MODERATE","Rv2160A",463,"p.Cys155Arg"]
["Rv2175c","NA",2437837,"G","A","missense_variant","MODERATE","Rv2175c",50,"p.Pro17Leu"]
["Rv2176","rs157729010",2438094,"T","G","missense_variant","MODERATE","pknL",154,"p.Ser52Ala"]
["Rv2258c","rs157714172",2531742,"A","G","synonymous_variant","LOW","Rv2258c",156,"p.Ala52Ala"]
["Rv2282c","NA",2555900,"G","T","upstream_gene_variant","MODIFIER","Rv2282c",-24]
["Rv2282c","NA",2559663,"C","G","upstream_gene_variant","MODIFIER","Rv2282c",-3787]
["Rv2359","rs157714635",2641840,"A","G","missense_variant","MODERATE","zur",191,"p.His64Arg"]
["Rv2720","NA",3032137,"T","C","missense_variant","MODERATE","lexA",350,"p.Val117Ala"]
["Rv2779c","rs157729340",3086728,"C","T","missense_variant","MODERATE","Rv2779c",27,"p.Met9Ile"]
["Rv2788","NA",3097368,"A","C","missense_variant","MODERATE","sirR",410,"p.Asp137Ala"]
["Rv2914c","NA",3223303,"C","T","synonymous_variant","LOW","pknI",222,"p.Glu74Glu"]
["Rv3080c","NA",3444566,"G","A","synonymous_variant","LOW","pknK",1423,"p.Leu475Leu"]
["Rv3080c","NA",3445339,"G","A","missense_variant","MODERATE","pknK",650,"p.Ala217Val"]
["Rv3124","rs157720762",3489340,"C","G","upstream_gene_variant","MODIFIER","moaR1",-166]
["Rv3132c","rs157720803",3498418,"A","G","missense_variant","MODERATE","devS",848,"p.Ile283Thr"]
["Rv3143","rs157720843",3509091,"G","C","upstream_gene_variant","MODIFIER","Rv3143",-563]
["Rv3220c","NA",3597396,"C","T","missense_variant","MODERATE","Rv3220c",139,"p.Asp47Asn"]
["Rv3245c","rs157721630",3625065,"T","G","missense_variant","MODERATE","mtrB",1549,"p.Met517Leu"]
["Rv3291c","NA",3672233,"G","A","missense_variant","MODERATE","lrpA",65,"p.Ala22Val"]
["Rv3405c","NA",3824746,"G","A","synonymous_variant","LOW","Rv3405c",523,"p.Leu175Leu"]
["Rv3676","rs157725051",4116682,"T","C","synonymous_variant","LOW","crp",205,"p.Leu69Leu"]
["Rv3736","rs157725421",4187485,"T","C","synonymous_variant","LOW","Rv3736",852,"p.Ala284Ala"]
["Rv3744","NA",4195742,"C","T","synonymous_variant","LOW","nmtR",303,"p.Ala101Ala"]
["Rv3764c","rs157725583",4210274,"A","G","missense_variant","MODERATE","tcrY",736,"p.Cys246Arg"]
["Rv3764c","rs157725591",4210876,"T","C","missense_variant","MODERATE","tcrY",134,"p.His45Arg"]
["Rv3764c","rs157725605",4215001,"C","A","upstream_gene_variant","MODIFIER","tcrY",-3992]
["Rv3833","rs157726104",4307179,"G","A","missense_variant","MODERATE","Rv3833",313,"p.Val105Ile"]

{"sheet":"Virulence","index":9,"n_rows":67,"n_cols":10,"rows_kept":67,"flags":["formulas_cached_only"]}
["Rv_locus","rsid","Chr_po","Ref","Altq","Type","Effect","Gene","Gene_pos","aa_change"]
["Rv0064A","NA",71731,"C","T","missense_variant","MODERATE","vapB1",143,"p.Ala48Val"]
["Rv0127","rs157699382",154283,"T","C","missense_variant","MODERATE","mak",52,"p.Ser18Pro"]
["Rv0134","NA",162308,"G","A","missense_variant","MODERATE","ephF",538,"p.Gly180Arg"]
["Rv0134","NA",162339,"A","G","missense_variant","MODERATE","ephF",569,"p.Asp190Gly"]
["Rv0168","NA",198136,"C","A","synonymous_variant","LOW","yrbE1B",477,"p.Ile159Ile"]
["Rv0169","rs157699945",199470,"T","G","missense_variant","MODERATE","mce1A",937,"p.Ser313Ala"]
["Rv0169","NA",199608,"C","T","missense_variant","MODERATE","mce1A",1075,"p.Pro359Ser"]
["Rv0170","rs157699959",200430,"T","C","missense_variant","MODERATE","mce1B",536,"p.Ile179Thr"]
["Rv0171","rs157699973",201567,"G","C","missense_variant","MODERATE","mce1C",636,"p.Glu212Asp"]
["Rv0174","rs157700062",206339,"T","C","missense_variant","MODERATE","mce1F",1109,"p.Leu370Pro"]
["Rv0174","rs157727191",206481,"C","G","synonymous_variant","LOW","mce1F",1251,"p.Pro417Pro"]
["Rv0174","rs157727192",206484,"G","T","synonymous_variant","LOW","mce1F",1254,"p.Gly418Gly"]
["Rv0240","rs157700757",289435,"G","T","missense_variant","MODERATE","vapC24",91,"p.Ala31Ser"]
["Rv0350","rs157701443",420008,"A","G","synonymous_variant","LOW","dnaK",174,"p.Ala58Ala"]
["Rv0351","NA",422379,"C","T","missense_variant","MODERATE","grpE",671,"p.Ser224Leu"]
["Rv0352","rs157701449",422745,"T","C","synonymous_variant","LOW","dnaJ1",294,"p.Gly98Gly"]
["Rv0432","NA",519806,"G","A","synonymous_variant","LOW","sodC",207,"p.Ala69Ala"]
["Rv0587","rs157727649",685461,"C","G","synonymous_variant","LOW","yrbE2A",333,"p.Ala111Ala"]
["Rv0587","rs157727650",685608,"T","C","synonymous_variant","LOW","yrbE2A",480,"p.Leu160Leu"]
["Rv0589","rs157703132",686972,"T","C","missense_variant","MODERATE","mce2A",152,"p.Phe51Ser"]
["Rv0589","NA",687353,"T","C","missense_variant","MODERATE","mce2A",533,"p.Leu178Pro"]
["Rv0591","NA",689204,"C","T","missense_variant","MODERATE","mce2C",146,"p.Thr49Met"]
["Rv0591","rs157727654",690248,"C","A","missense_variant","MODERATE","mce2C",1190,"p.Thr397Asn"]
["Rv0591","rs157727658",690450,"A","C","synonymous_variant","LOW","mce2C",1392,"p.Ala464Ala"]
["Rv0591","rs157703155",690465,"T","G","synonymous_variant","LOW","mce2C",1407,"p.Leu469Leu"]
["Rv1102c","rs157706710",1230778,"G","A","missense_variant","MODERATE","mazF3",194,"p.Thr65Ile"]
["Rv1397c","rs157708512",1574206,"T","C","missense_variant","MODERATE","vapC10",308,"p.Asp103Gly"]
["Rv1562c","NA",1766620,"C","T","missense_variant","MODERATE","treZ",523,"p.Ala175Thr"]
["Rv1564c","rs157709595",1775167,"G","A","upstream_gene_variant","MODIFIER","treX",-3566]
["Rv1694","rs157710545",1917972,"A","G","synonymous_variant","LOW","tlyA",33,"p.Leu11Leu"]
["Rv1720c","rs157710714",1951764,"G","A","upstream_gene_variant","MODIFIER","vapC12",-4345]
["Rv1741","rs157710832",1968116,"A","C","missense_variant","MODERATE","vapC34",200,"p.Lys67Thr"]
["Rv1908c","rs157712008",2154724,"C","A","missense_variant","MODERATE","katG",1388,"p.Arg463Leu"]
["Rv1908c","rs157712010",2155503,"G","A","synonymous_variant","LOW","katG",609,"p.Thr203Thr"]
["Rv1908c","NA",2156025,"G","T","synonymous_variant","LOW","katG",87,"p.Pro29Pro"]
["Rv2006","NA",2252239,"G","A","missense_variant","MODERATE","otsB1",238,"p.Gly80Ser"]
["Rv2006","rs157712515",2253099,"A","C","synonymous_variant","LOW","otsB1",1098,"p.Ala366Ala"]
["Rv2009","NA",2258216,"A","G","missense_variant","MODERATE","vapB15",187,"p.Asn63Asp"]
["Rv2274c","NA",2546707,"T","C","missense_variant","MODERATE","mazF8",99,"p.Ile33Met"]
["Rv2299c","rs157714338",2573756,"C","A","upstream_gene_variant","MODIFIER","htpG",-1754]
["Rv2416c","NA",2715125,"T","C","missense_variant","MODERATE","eis",208,"p.Thr70Ala"]
["Rv2416c","rs157729124",2718852,"T","G","upstream_gene_variant","MODIFIER","eis",-3520]
["Rv2416c","rs157729129",2719057,"G","A","upstream_gene_variant","MODIFIER","eis",-3725]
["Rv2526","NA",2851291,"G","A","synonymous_variant","LOW","vapB17",201,"p.Val67Val"]
["Rv2596","rs157716375",2925962,"T","C","missense_variant","MODERATE","vapC40",229,"p.Cys77Arg"]
["Rv2830c","rs157718801",3137058,"G","A","missense_variant","MODERATE","vapB22",167,"p.Ala56Val"]
["Rv2866","rs157719059",3177884,"C","A","synonymous_variant","LOW","relG",63,"p.Arg21Arg"]
["Rv3063","NA",3428446,"G","T","missense_variant","MODERATE","cstA",1204,"p.Gly402Cys"]
["Rv3063","rs157720419",3428917,"C","A","missense_variant","MODERATE","cstA",1675,"p.Arg559Ser"]
["Rv3063","NA",3429041,"T","C","missense_variant","MODERATE","cstA",1799,"p.Leu600Pro"]
["Rv3082c","NA",3447463,"G","A","missense_variant","MODERATE","virS",964,"p.Arg322Cys"]
["Rv3171c","NA",3540144,"G","A","missense_variant","MODERATE","hpx",602,"p.Thr201Met"]
["Rv3358","NA",3771245,"G","A","synonymous_variant","LOW","relK",201,"p.Leu67Leu"]
["Rv3408","rs157723388",3826684,"C","T","missense_variant","MODERATE","vapC47",137,"p.Ser46Leu"]
["Rv3473c","rs157723898",3895727,"C","A","upstream_gene_variant","MODIFIER","bpoA",-4994]
["Rv3490","rs157723963",3909235,"G","C","missense_variant","MODERATE","otsA",1000,"p.Val334Leu"]
["Rv3494c","NA",3912636,"T","C","missense_variant","MODERATE","mce4F",734,"p.Asp245Gly"]
["Rv3500c","rs157723984",3919439,"G","A","synonymous_variant","LOW","yrbE4B",624,"p.Pro208Pro"]
["Rv3660c","rs157724997",4099060,"G","A","missense_variant","MODERATE","Rv3660c",89,"p.Pro30Leu"]
["Rv3661","NA",4099764,"T","C","missense_variant","MODERATE","Rv3661",118,"p.Ser40Pro"]
["Rv3697c","rs157725190",4140143,"C","T","missense_variant","MODERATE","vapC48",100,"p.Gly34Arg"]
["Rv3756c","rs157725504",4202383,"A","C","synonymous_variant","LOW","proZ",231,"p.Val77Val"]
["Rv3759c","rs157725510",4204441,"A","G","synonymous_variant","LOW","proX",933,"p.His311His"]
["Rv3759c","NA",4204847,"G","A","missense_variant","MODERATE","proX",527,"p.Ala176Val"]
["Rv3759c","rs157725527",4205120,"A","G","missense_variant","MODERATE","proX",254,"p.Leu85Pro"]
["Rv3846","NA",4321317,"T","C","missense_variant","MODERATE","sodA",614,"p.Ile205Thr"]