{"text_format":"3","workbook":"xls","n_sheets":3,"sheets":["Results","Lineage analysis summary","Loci of Interest"],"not_rendered":{"external_links":1,"defined_names":3},"read":"whole","date_system":"1900","formulas":"cached_only"}

{"sheet":"Results","index":0,"n_rows":91,"n_cols":28,"rows_kept":91,"flags":["formulas_cached_only"]}
["key","NCBI Run Accesion ID","genotype","genotype NGS(PhyResSE)","Lineage NGS(Unified_pipeline)&(Sublineage)","SM","INH","RMP","EMB","PZA","rpsL","NGS rpsL","NGS-Unified_pipeline rpsL","gidB","NGS gidB","NGS-Unified_pipeline gidB","katG","NGS katG","NGS-Unified_pipeline katG","rpoB","NGS rpoB","NGS-Unified_pipeline rpoB","embB","NGS embB","NGS-Unified_pipeline embB","pncA","NGS pncA","NGS-Unified_pipeline pncA"]
["10010/03","ERR552605","West African 1","West African 1","West African 1",0,0,0,0,0,"WT","WT","WT","Ala205Ala (GCA/GCG) phylo","Ala205Ala (GCA/GCG) phylo","Ala205Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["10011/03","ERR552260","LAM","LAM","Euro-American(4.3.3)",1,1,0,1,0,"Lys43Arg (AAG/AGG)","Lys43Arg (AAG/AGG)","Lys43Arg","Leu16Arg (CTT/CGT) phylo; Ala161Ala (GCC/GCG) phylo","Leu16Arg (CTT/CGT) phylo; Ala161Ala (GCC/GCG) phylo","Leu16Arg;  Ala161Ala","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","Ser315Th","Asp435Tyr (GAC/TAC)","Asp435Tyr (GAC/TAC)","Asp435Tyr","Trp332Arg (TGG/CGG)","Trp332Arg (TGG/CGG)","Trp332Arg","WT","WT","WT"]
["10012/03","ERR552132","Sierra Leone-1","Euro-American Superlineage","Euro-American(4.1)",1,0,0,0,0,"Lys43Arg (AAG/AGG)","Lys43Arg (AAG/AGG)","Lys43Arg","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["10205/03","ERR552310","LAM","LAM","Euro-American(4.3.3)",0,0,0,0,0,"WT","WT","WT","Leu16Arg (CTT/CGT) phylo","Leu16Arg (CTT/CGT) phylo","Leu16Arg","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["10206/03","ERR551399","LAM","LAM","Euro-American(4.3.3)",0,0,0,0,0,"WT","WT","WT","Leu16Arg (CTT/CGT); Ala161Ala (GCC/GCG) phylo","Leu16Arg (CTT/CGT); Ala161Ala (GCC/GCG) phylo","Leu16Arg","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["10207/03","ERR552853","Cameroon","Cameroon","Euro-American(4.6.2.2)",0,0,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["10208/03","ERR552930","West African 2","West African 2","West African 2",1,0,0,0,0,"WT","WT","WT","Ala200Glu (GCG/GAG); Ala205Ala (GCA/GCG) phylo","Ala200Glu (GCG/GAG); Ala205Ala (GCA/GCG) phylo","Ala200Glu; Ala205Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["10348/03","ERR551513","LAM","LAM","Euro-American(4.3.4.2)",1,1,1,1,0,"WT","WT","WT","Leu16Arg (CTT/CGT) phylo","Leu16Arg (CTT/CGT) phylo","Leu16Arg","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","Ser315Thr","Ser450Leu (TCG/TTG)","Ser450Leu (TCG/TTG)","Ser450Leu","WT","WT","WT","WT","WT","WT"]
["10349/03","ERR551069","none","Euro-American Superlineage","Euro-American(4.1)",1,1,0,1,0,"Lys43Arg (AAG/AGG)","Lys43Arg (AAG/AGG)","Lys43Arg","WT","WT","WT","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","Ser315Thr","WT","WT","WT","Met306Ile (ATG/ATA)","Met306Ile (ATG/ATA)","Met306Ile","WT","WT","WT"]
["10350/03","ERR551807","Haarlem","Haarlem","Euro-American(4.1.2.1)",1,1,1,1,1,"WT","WT",null,"34: GC/C (1bp-deletion)","34: GC/C (1bp-deletion)","34: GC/C (1bp-deletion)","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","Ser315Thr","His445Arg (CAC/CGC)","His445Arg (CAC/CGC)","His445Arg","Met306Ile (ATG/ATA)","Met306Ile (ATG/ATA)","Met306Ile","Ala146Glu (GCG/GAG)","Ala146Glu (GCG/GAG)","Ala146Glu"]
["10517/03","ERR553212","Sierra Leone-2","Euro-American Superlineage","Euro-American(4.8)",1,0,1,0,0,"WT","WT","WT","Gly71Arg (GGA/AGA)","Gly71Arg (GGA/AGA); Val88Ala (GTA/GCA)","Gly71Arg;  Val88Ala","WT","WT","WT","Thr400Ala (ACC/GCC); Ser450Ser+Leu (TCG/TCG+TTG)","Thr400Ala (ACC/GCC); His445Tyr (CAC/TAC); Ser450Leu (TCG/TTG)","Thr400Ala;His445Tyr;Ser450Leu","WT","WT","WT","WT","WT","WT"]
["11096/03","ERR553314","Sierra Leone-2","Euro-American Superlineage","Euro-American(4.8)",0,1,0,0,0,"WT","WT","WT","WT","WT","WT","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","Ser315Thr","WT","WT","WT","Gln497Arg (CAG/CGG)","Gln497Arg (CAG/CGG)","Gln497Arg","WT","WT","WT"]
["11097/03","ERR552879","Sierra Leone-1","Euro-American Superlineage","Euro-American(4.1)",0,0,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["11818/03","ERR551255","Haarlem","Haarlem","Euro-American(4.1.2.1)",0,0,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["11821/03","ERR551336","West African 1","West African 1","West African 1",0,0,0,0,0,"WT","WT","WT","Ala205Ala (GCA/GCG) phylo","Ala205Ala (GCA/GCG) phylo","Ala205Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["11822/03","ERR552707","Haarlem","Haarlem","Euro-American(4.1.2.1)",1,1,0,1,0,"Lys88Arg (AAG/AGG)","Lys88Arg (AAG/AGG)","Lys88Arg","WT","WT","WT","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","Ser315Thr","WT","WT","WT","Gln497Lys (CAG/AAG)","Gln497Lys (CAG/AAG)","Gln497Lys","WT","WT","WT"]
["12655/03","ERR552161","Cameroon","Cameroon","Euro-American(4.6.2.2)",0,0,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["12657/03","ERR553226","Sierra Leone-1","Euro-American Superlineage","Euro-American(4.1)",1,0,1,0,1,"Lys88Arg (AAG/AGG)","Lys88Arg (AAG/AGG)","Lys88Arg","38:CCC/CC (1bp-deletion)","38:CCC/CC (1bp-deletion)","38:(1bp deletion)","WT","WT","WT","Ser450Leu (TCG/TTG)","Ser450Leu (TCG/TTG)","Ser450Leu","WT","WT","WT","Gly162Asp (GGT/GAT)","Gly162Asp (GGT/GAT)","Gly162Asp"]
["12658/03","ERR552125","Beijing","Beijing","East Asian(2.2.1)",1,1,0,0,0,"Lys43Arg (AAG/AGG)","Lys43Arg (AAG/AGG)","Lys43Arg","Gly92Asp (GAA/GAC) phylo; Ala205Ala (GCA/GCG) phylo","Gly92Asp (GAA/GAC) phylo; Ala205Ala (GCA/GCG) phylo","Gly92Asp; Ala205Ala","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","Ser315Thr","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["1322/04","ERR553131","none","Euro-American Superlineage","Euro-American(4.8)",0,1,0,0,0,"WT","WT","WT","WT","WT","WT","Ser302Arg (AGC/AGG)","Ser302Arg (AGC/AGG)","Ser315Thr","WT","WT","WT","WT","WT","WT","Thr87Met (ACG/ATG)","Thr87Met (ACG/ATG)","Thr87Met"]
["1324/04","ERR552662","S","S","Euro-American(4.4.1.1)",1,1,1,1,0,"Lys43Arg (AAG/AGG)","Lys43Arg (AAG/AGG)","WT","WT","WT","WT","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","Ser315Thr","Ser450Leu (TCG/TTG)","Ser450Leu (TCG/TTG)","Ser450Leu","Asp356Ala (GAC/GCC)","Asp356Ala (GAC/GCC)","Asp356Ala","WT","WT","WT"]
["1327/04","ERR553286","West African 2","West African 2","West African 2",0,0,0,0,0,"WT","WT","WT","Ala205Ala (GCA/GCG) phylo","Ala205Ala (GCA/GCG) phylo","Ala205Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["1597/04","ERR552455","LAM","LAM","Euro-American(4.3.3)",1,0,0,0,0,"WT","WT","WT","Leu16Arg (CTT/CGT) phylo; Ala200Glu (GCG/GAG)","Leu16Arg (CTT/CGT) phylo; Ala200Glu (GCG/GAG)","Leu16Arg;  Ala200Glu","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["1599/04","ERR550665","Haarlem","Haarlem","Euro-American(4.1.2.1)",1,1,1,1,1,"Lys88Arg (AAG/AGG)","Lys88Arg (AAG/AGG)","Lys88Arg","WT","WT","WT","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","Ser315Thr","Ser450Leu (TCG/TTG)","Ser450Leu (TCG/TTG)","Ser450Leu","Gly406Asp (GGC/GAC)","Gly406Asp (GGC/GAC)","Gly406Asp","Leu172Pro (CTG/CCG)","Leu172Pro (CTG/CCG)","Leu172Pro"]
["1779/04","ERR553009","Sierra Leone-2","Euro-American Superlineage","Euro-American(4.8)",0,0,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["1780/04","ERR551551","Sierra Leone-2","Euro-American Superlineage","Euro-American(4.8)",0,0,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["1783/04","ERR552117","Sierra Leone-1","Euro-American Superlineage","Euro-American(4.1)",1,0,0,0,0,"WT","WT","WT","Ala138Val (GCG/GTG)","Ala138Val (GCG/GTG)","Ala138Val","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["2509/04","ERR553228","LAM","LAM","Euro-American(4.3.3)",0,1,0,0,0,"WT","WT","WT","Leu16Arg (CTT/CGT) phylo; Gln127Stop (CAA/TAA); Ala161Ala (GCC/GCG) phylo","Leu16Arg (CTT/CGT) phylo; Gln127Stop (CAA/TAA); Ala161Ala (GCC/GCG) phylo","Leu16Arg ; Gln127Stop ; Ala161Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["3154/04","ERR552729","Haarlem","Haarlem","Euro-American(4.1.2.1)",0,0,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["3156/04","ERR553047","none","Euro-American Superlineage","Euro-American(4.1)",1,1,0,0,0,"Lys43Arg (AAG/AGG)","Lys43Arg (AAG/AGG)","Lys43Arg","WT","WT","WT","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["3158/04","ERR552553","Sierra Leone-2","Euro-American Superlineage","Euro-American(4.8)",0,0,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["3160/04","ERR552267","West African 2","West African 2","West African 2",0,0,0,0,0,"WT","WT","WT","Ala205Ala (GCA/GCG) phylo","Ala205Ala (GCA/GCG) phylo","Ala205Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["3491/04","ERR552800","EAI","EAI","Indo-Oceanic(1.1.1)",0,0,0,0,0,"WT","WT","WT","Val110Val (GTG/GTT) phylo; Ala205Ala (GCA/GCG) phylo","Val110Val (GTG/GTT) phylo; Ala205Ala (GCA/GCG) phylo","Ala205Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["3494/04","ERR551566","West African 1","West African 1","West African 1",0,0,0,0,0,"WT","WT","WT","Ala205Ala (GCA/GCG) phylo","Ala205Ala (GCA/GCG) phylo","Val110Val;Ala205Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["3496/04","ERR552836","Haarlem","Haarlem","Euro-American(4.1.2.1)",0,0,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["3497/04","ERR552523","none","Euro-American Superlineage","Euro-American(4.8)",0,0,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["3734/04","ERR553371","Cameroon","Cameroon","Euro-American(4.6.2.2)",0,0,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["3736/04","ERR551569","Sierra Leone-1","Euro-American Superlineage","Euro-American(4.1)",1,1,0,0,1,"WT","WT","WT","34: GC/C (1bp-deletion)","34: GC/C (1bp-deletion)","33: Gc/C(1bp deletion)","WT","WT","WT","Leu430Pro (CTG/CCG)","Leu430Pro (CTG/CCG)","Leu430Pro","WT","WT","WT","minus 11 (A/G)","minus 11 (A/G)","minus 11 (A/G)"]
["3859/03","ERR551193","none","Euro-American Superlineage","Euro-American(4.1)",1,0,0,0,0,"WT","WT","WT","Gly34Ala (GGG/GCG)","Gly34Ala (GGG/GCG)","Gly34Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["3861/03","ERR551848","none","Euro-American Superlineage","Euro-American(4.9)",1,0,0,0,0,"WT","WT","WT","14: CG/C (1bp-deletion)","14: CG/C (1bp-deletion)","14: CG/C","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["3865/03","ERR551197","LAM","LAM","Euro-American(4.3.3)",0,0,0,0,0,"WT","WT","WT","Leu16Arg (CTT/CGT) phylo","Leu16Arg (CTT/CGT) phylo","Leu16Arg","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["4139/04","ERR551070","West African 2","West African 2","West African 2",1,1,0,0,1,"Lys43Arg (AAG/AGG)","Lys43Arg (AAG/AGG)","Lys43Arg","Ala205Ala (GCA/GCG) phylo","Ala205Ala (GCA/GCG) phylo","Ala205Ala","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","Ser315Thr","WT","WT","WT","WT","WT","WT","64:TAT/TATA (1bp-insertion)","64:TAT/TATA (1bp-insertion)","65: (1bp-Insertion)"]
["4145/04","ERR552082","LAM","LAM","Euro-American(4.3.3)",0,0,0,0,0,"WT","WT","WT","Leu16Arg (CTT/CGT) phylo","Leu16Arg (CTT/CGT) phylo","Leu16Arg","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["4148/04","ERR551126","Haarlem","Haarlem","Euro-American(4.1.2.1)",1,1,1,1,1,"Lys88Arg (AAG/AGG)","Lys88Arg (AAG/AGG)","Lys88Arg","WT","WT","WT","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","Ser315Thr","Ser450Leu (TCG/TTG)","Ser450Leu (TCG/TTG)","Ser450Leu","Met306Ile (ATG/ATC)","Met306Ile (ATG/ATC)","Met306Ile","Ile5Ile+Thr (ATC/ATC+ACC)","Ile5Ile+Thr (ATC/ATC+ACC)","Ile5Thr"]
["420/04","ERR550729","Sierra Leone-1","Euro-American Superlineage","Euro-American(4.1)",1,0,0,0,0,"WT","WT",null,"WT","WT","WT","WT","WT","WT","WT","Leu452Pro (CTG/CCG)","Leu430Pro","WT","WT","WT","WT","WT","WT"]
["421/04","ERR552247","West African 2","West African 2","West African 2",0,0,0,0,0,"WT","WT","WT","Ala205Ala (GCA/GCG) phylo","Ala205Ala (GCA/GCG) phylo","Ala205Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["423/04","ERR553132","Haarlem","Haarlem","Euro-American",1,1,1,0,1,"Lys88Arg (AAG/AGG)","Lys88Arg (AAG/AGG)","Lys88Arg","WT","WT","WT","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","Ser315Thr","Leu452Pro (CTG/CCG)","Leu452Pro (CTG/CCG)","Leu452Pro","WT","WT","WT","WT","WT","WT"]
["4514/03","ERR553166","Haarlem","Haarlem","Euro-American(4.1.2.1)",1,1,0,0,0,"Lys88Arg (AAG/AGG)","Lys88Arg (AAG/AGG)","Lys88Arg","WT","WT","WT","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","Ser315Thr","WT","WT","WT","Gln497Lys (CAG/AAG)","Gln497Lys (CAG/AAG)","Gln497Lys","WT","WT","WT"]
["4516/03","ERR551725","X","Euro-American Superlineage","Euro-American(4.1.1.1)",0,0,0,0,0,"WT","WT",null,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["4518/03","ERR551620","West African 1","West African 1","West African 1",1,1,0,1,1,"Lys88Arg (AAG/AGG)","Lys88Arg (AAG/AGG)","Lys88Arg","Ala205Ala (GCA/GCG) phylo","Ala205Ala (GCA/GCG) phylo","Ala205Ala","Arg463Leu (CGG/CTG) phylo","Arg463Leu (CGG/CTG) phylo","Arg463Leu","Asp435Tyr (GAC/TAC)","Asp435Tyr (GAC/TAC)","Asp435Tyr","Met306Ile (ATG/ATA)","Met306Ile (ATG/ATA)","Met306Ile","143: gccagacggc (10bp-insertion)","143: gccagacggc (10bp-insertion)","140: (10bp-insertion)"]
["4523/03","ERR551924","LAM","LAM","Euro-American(4.3.3)",1,0,0,0,0,"WT","WT","WT","Leu16Arg (CTT/CGT) phylo; Ala200Glu (GCG/GAG)","Leu16Arg (CTT/CGT) phylo; Ala200Glu (GCG/GAG)","Leu16Arg;Ala200Glu","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["4712/04","ERR551089","West African 2","West African 2","West African 2",0,0,0,0,0,"WT","WT","WT","Ala205Ala (GCA/GCG) phylo","Ala205Ala (GCA/GCG) phylo","Ala205Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["4714/04","ERR553145","S","S","Euro-American(4.4.1.1)",0,0,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["4717/04","ERR553258","EAI","EAI","Indo-Oceanic(1.1.1)",0,0,0,0,0,"WT","WT","WT","Val110Val (GTG/GTT) phylo; Ala205Ala (GCA/GCG) phylo","Val110Val (GTG/GTT) phylo; Ala205Ala (GCA/GCG) phylo","Val110Val;Ala205Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["4724/03","ERR552658","Beijing","Beijing","East Asian(2.2.1)",1,1,1,1,0,"Lys43Arg (AAG/AGG)","Lys43Arg (AAG/AGG)","Lys43Arg","Gly92Asp (GAA/GAC) phylo; Ala205Ala (GCA/GCG) phylo","Gly92Asp (GAA/GAC) phylo; Ala205Ala (GCA/GCG) phylo","Gly92Asp; Ala205Ala","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","Ser315Thr","His445Arg (CAC/CGC)","His445Arg (CAC/CGC)","His445Arg","His1002Arg (CAG/CGC)","His1002Arg (CAG/CGC)","His1002Arg","Thr47Ala (ACC/GCC)","Thr47Ala (ACC/GCC)","Thr47Ala"]
["4779/04","ERR552922","Sierra Leone-2","Euro-American Superlineage","Euro-American(4.8)",1,0,0,0,0,"WT","WT","WT","Leu91Pro (CTA/CCA)","Leu91Pro (CTA/CCA)","Leu91Pro","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["4781/04","ERR551038","Haarlem","Haarlem","Euro-American(4.1.2.1)",0,1,0,0,0,"WT","WT","WT","WT","WT","WT","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","Ser315Thr","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["4783/04","ERR550964","Cameroon","Cameroon","Euro-American(4.6.2.2)",0,0,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["4785/04","ERR552095","Haarlem","Haarlem","Euro-American(4.1.2.1)",0,0,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["5248/04","ERR551998","none","Euro-American Superlineage","Euro-American(4.1.1.3)",1,0,0,0,0,"WT","WT","WT","Ala138Val (GCG/GTG)","Ala138Val (GCG/GTG)","Ala138Val","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["5253/04","ERR551857","West African 2","West African 2","West African 2",0,0,0,0,0,"WT","WT","WT","Ala205Ala (GCA/GCG) phylo","Ala205Ala (GCA/GCG) phylo","Ala205Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["5468/03","ERR550832","LAM","LAM","Euro-American(4.3.3)",0,0,0,0,0,"WT","WT","WT","Leu16Arg (CTT/CGT) phylo","Leu16Arg (CTT/CGT) phylo","Leu16Arg","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["5472/03","ERR553386","Sierra Leone-2","Euro-American Superlineage","Euro-American(4.8)",1,0,0,0,0,"WT","WT","WT","Val65Gly (GTC/GGC)","Val65Gly (GTC/GGC)","Val65Gly","WT","WT","WT","Leu452Pro (CTG/CCG)","Leu452Pro (CTG/CCG)","Leu452Pro","WT","WT","WT","WT","WT","WT"]
["5685/04","ERR552935","Sierra Leone-2","Euro-American Superlineage","Euro-American(4.8)",1,0,1,0,0,"WT","WT","WT","Val88Ala (GTA/GCA)","Val88Ala (GTA/GCA)","Val88Ala","WT","WT","WT","His445Tyr (CAC/TAC)","His445Tyr (CAC/TAC)","His445Tyr","WT","WT","WT","WT","WT","WT"]
["5687/04","ERR552728","Sierra Leone-2","Euro-American Superlineage","Euro-American(4.8)",0,0,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["5872/03","ERR551102","Ghana","Ghana","Euro-American(4.1)",0,0,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["6429/03","ERR552160","none","Euro-American Superlineage","Euro-American(4.1)",0,0,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["6435/03","ERR551419","West African 2","West African 2","West African 2",0,0,0,0,0,"WT","WT","WT","Ala205Ala (GCA/GCG) phylo","Ala205Ala (GCA/GCG) phylo","Ala205Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["6463/04","ERR550902","none","Euro-American Superlineage","Euro-American(4.8)",0,0,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["6467/04","ERR553369","Haarlem","Haarlem","Euro-American(4.1.2.1)",1,1,0,0,0,"Lys88Arg (AAG/AGG)","Lys88Arg (AAG/AGG)","Lys88Arg","WT","WT","WT","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","Ser315Thr","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["6637/04","ERR552094","EAI","EAI","Indo-Oceanic(1.1.1)",0,0,0,0,0,"WT","WT","WT","Val110Val (GTG/GTT) phylo; Ala205Ala (GCA/GCG) phylo","Val110Val (GTG/GTT) phylo; Ala205Ala (GCA/GCG) phylo","Val110Val;Ala205Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["6639/04","ERR552979","LAM","LAM","Euro-American(4.3.4.2)",1,1,1,1,0,"WT","WT","WT","Leu16Arg (CTT/CGT) phylo","Leu16Arg (CTT/CGT) phylo","Leu16Arg","Ser315Thr (AGC/ACC); Gln471Arg (CAG/CGG)","Ser315Thr (AGC/ACC); Gln471Arg (CAG/CGG)","Ser315Thr; Gln471Arg","Ser450Leu (TCG/TTG)","Ser450Leu (TCG/TTG)","Ser450Leu","Met306Met+Ile (ATG/ATG+ATA)","Met306Ile (ATG/ATA); Met306Val (ATG/GTG)","Met30Ile; Met306Val","WT","WT","WT"]
["6640/04","ERR552647","none","Haarlem","Euro-American(4.1.2.1)",0,0,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["6769/04","ERR550942","West African 2","West African 2","West African 2",0,0,0,0,0,"WT","WT","WT","Ala205Ala (GCA/GCG) phylo","Ala205Ala (GCA/GCG) phylo","Ala205Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["6771/04","ERR553172","S","S","Euro-American(4.4.1.1)",0,1,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["6775/04","ERR550712","West African 2","West African 2","West African 2",0,0,0,0,0,"WT","WT","WT","Ala205Ala (GCA/GCG) phylo","Ala205Ala (GCA/GCG) phylo","Ala205Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["6892/04","ERR551915","West African 2","West African 2","West African 2",0,0,0,0,0,"WT","WT","WT","Ala205Ala (GCA/GCG) phylo","Ala205Ala (GCA/GCG) phylo","Ala205Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["6895/04","ERR550994","EAI","EAI","Indo-Oceanic(1.1.1)",0,0,0,0,0,"WT","WT","WT","Val110Val (GTG/GTT) phylo; Ala205Ala (GCA/GCG) phylo","Val110Val (GTG/GTT) phylo; Ala205Ala (GCA/GCG) phylo","Val110Val;Ala205Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["6897/04","ERR552261","West African 1","West African 1","West Africa 1",1,0,0,0,0,"Lys88Arg (AAG/AGG)","Lys88Arg (AAG/AGG)","Lys88Arg","Ala205Ala (GCA/GCG) phylo","Ala205Ala (GCA/GCG) phylo","Ala205Ala","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["7000/03","ERR553032","LAM","LAM","Euro-American(4.3.4.2)",0,0,0,0,0,"WT","WT","WT","Leu16Arg (CTT/CGT) phylo","Leu16Arg (CTT/CGT) phylo","Leu16Arg","WT","WT","WT","WT","WT","Asp634Gly","WT","WT","WT","WT","WT","WT"]
["7135/04","ERR553037","Beijing","Beijing","East Asian(2.2.1)",1,1,1,1,0,"Lys43Arg (AAG/AGG)","Lys43Arg (AAG/AGG)","Lys43Arg","Gly92Asp (GAA/GAC) phylo; Ala205Ala (GCA/GCG) phylo","Gly92Asp (GAA/GAC) phylo; Ala205Ala (GCA/GCG) phylo","Glu92Asp;Ala205Ala","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","Ser315Thr","His445Tyr (CAC/TAC)","His445Tyr (CAC/TAC)","His445Tyr","Met306Val (ATG/GTG)","Met306Val (ATG/GTG)","Met306Val","WT","WT","WT"]
["7514/04","ERR550634","LAM","LAM","Euro-American(4.3.4.1)",0,0,1,0,0,"WT","WT","WT","Leu16Arg (CTT/CGT) phylo","Leu16Arg (CTT/CGT) phylo","Leu16Arg","WT","WT","WT","Ser450Leu (TCG/TTG)","Ser450Leu (TCG/TTG)","Ser450Leu","WT","WT","WT","WT","WT","WT"]
["7516/04","ERR551176","LAM","LAM","Euro-American(4.3)",0,0,0,0,0,"WT","WT","WT","Leu16Arg (CTT/CGT) phylo","Leu16Arg (CTT/CGT) phylo","Leu16Arg","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["7517/04","ERR552411","none","Euro-American Superlineage","Euro-American(4.1.1.3)",1,0,0,0,0,"WT","WT","WT","Gly69Asp (GGT/GAT)","Gly69Asp (GGT/GAT)","Gly69Asp","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["7520/04","ERR553024","LAM","LAM","Euro-American(4.3.3)",0,1,0,0,0,"WT","WT","WT","Leu16Arg (CTT/CGT) phylo; Ala161Ala (GCC/GCG) phylo","Leu16Arg (CTT/CGT) phylo; Ala161Ala (GCC/GCG) phylo","Leu16Arg;Ala161Ala","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","Ser315Thr","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["7538/03","ERR552282","X","Euro-American Superlineage","Euro-American(4.1.1.3)",1,0,0,0,0,"WT","WT","WT","Gly69Asp (GGT/GAT)","Gly69Asp (GGT/GAT)","Gly69Asp","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["8082/03","ERR553347","Sierra Leone-1","Euro-American Superlineage","Euro-American(4.1)",0,1,0,0,0,"WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT","WT"]
["8864/03","ERR553000","West African 2","West African 2","West African 2",1,1,1,1,0,"Lys43Arg (AAG/AGG)","Lys43Arg (AAG/AGG)","Lys43Arg","Ala205Ala (GCA/GCG) phylo","Ala205Ala (GCA/GCG) phylo","Ala205Ala","Ser315Thr (AGC/ACC)","Ser315Thr (AGC/ACC)","Ser315Thr","His445Tyr (CAC/TAC)","His445Tyr (CAC/TAC)","His445Tyr","Met306Ile (ATG/ATA)","Met306Ile (ATG/ATA)","Met306Ile","Pro62Pro+Ser (CCG/CCG+TCG)","Pro62Pro+Ser (CCG/CCG+TCG)","Pro62Ser"]
["8867/03","ERR551118","West African 2","West African 2","West African 2",0,1,0,0,0,"WT","WT","WT","Ala205Ala (GCA/GCG) phylo","Ala205Ala (GCA/GCG) phylo","Ala205Ala","Trp300Cys (TGG/TGC)","Trp300Cys (TGG/TGC)","Trp300Cys","WT","WT","WT","WT","Met306Ile (ATG/ATA)","Met306Ile","WT","WT","WT"]
["8868/03","ERR552427","West African 1","West African 1","West African 1",0,1,0,0,1,"WT","WT","WT","Ala205Ala (GCA/GCG) phylo","Ala205Ala (GCA/GCG) phylo","Ala205Ala","Arg463Leu (CGG/CTG)","Arg463Leu (CGG/CTG)","Arg463Leu","WT","WT","WT","Gly406Ala (GGC/GCC)","Gly406Ala (GGC/GCC)","Gly406Asp","WT","Val180Phe (GTCTTC)","Val180Phe"]

{"sheet":"Lineage analysis summary","index":1,"n_rows":9,"n_cols":4,"rows_kept":9,"flags":["formulas_cached_only"]}
["Lineages","# of strains inferred by Conventional genotyping","# of strains inferred by PhyResSE","# of strains inferred by the Unified pipeline"]
["Indo-Oceanic (Lineage 1)",4,4,4]
["East-Asian (Lineage 2)",3,3,3]
["East-African-Indian(Lineage 3)",0,0,0]
["Euro-American (Lineage4)",56,67,67]
["West African1 (Lineage 5)",5,5,5]
["West African2 (Lineage 6)",11,11,11]
["Ethiopian   (Lineage 7)",0,0,0]
["None",11,0,0]

{"sheet":"Loci of Interest","index":2,"n_rows":172,"n_cols":9,"rows_kept":172,"flags":["formulas_cached_only"]}
["H37Rv gene","start","stop","type","Rv number","coding strand","associated antibiotic resistance","comment","length"]
["gyrB upstream",4998,5239,"intergenic",null,"forward","moxifloxacin, gatifloxacin, ofloxacin, levofloxacin",null,242]
["gyrB",5240,7267,"CDS","Rv0005","forward","moxifloxacin, gatifloxacin, ofloxacin, levofloxacin",null,2028]
["gyrA upstream",7268,7301,"intergenic",null,"forward","moxifloxacin, gatifloxacin, ofloxacin, levofloxacin",null,34]
["gyrA",7302,9818,"CDS","Rv0006","forward","moxifloxacin, gatifloxacin, ofloxacin, levofloxacin",null,2517]
["pbpA",18759,20234,"CDS","Rv0016c","reverse","beta-lactams",null,1476]
["ponA1 upstream",53245,53662,"intergenic",null,"forward","rifampicin, rifabutin, beta-lactams",null,418]
["ponA1",53663,55699,"CDS","Rv0050","forward","rifampicin, rifabutin, beta-lactams",null,2037]
["ldtA",140267,141022,"CDS","Rv0116c","reverse","beta-lactams",null,756]
["ldtA upstream",141023,141199,"intergenic",null,"reverse","beta-lactams",null,177]
["ldtE upstream",223531,223563,"intergenic",null,"forward","beta-lactams",null,33]
["ldtE",223564,224664,"CDS","Rv0192","forward","beta-lactams",null,1101]
["inbR",330933,331658,"CDS","Rv0275c","reverse","isoniazid",null,726]
["inbR upstream",331659,331747,"intergenic",null,"reverse","isoniazid",null,89]
["fgd1 upstream",490706,490782,"intergenic",null,"forward","delamanid, PA-824",null,77]
["fgd1",490783,491793,"CDS","Rv0407","forward","delamanid, PA-824",null,1011]
["lprQ upstream",571649,571709,"intergenic",null,"forward","beta-lactams",null,61]
["lprQ",571710,573065,"CDS","Rv0483","forward","beta-lactams",null,1356]
["mshA upstream",575301,575347,"intergenic",null,"forward","isoniazid, ethionamide, prothionamide",null,47]
["mshA",575348,576790,"CDS","Rv0486","forward","isoniazid, ethionamide, prothionamide",null,1443]
["Rv0565c",656010,657470,"CDS","Rv0565c","reverse","ethionamide, prothionamide","alternative activator for Eto/Pto or compensates for EthA deficit",1461]
["Rv0565c upstream",657471,657547,"intergenic",null,"reverse","ethionamide, prothionamide",null,77]
["hadA upstream",731880,731929,"intergenic",null,"forward","thioacetazone",null,50]
["hadA,hadB,hadC",731930,733325,"CDS","Rv0635, Rv0636, Rv0637","forward","thioacetazone",null,1396]
["mmaA4",736298,737203,"CDS","Rv0642c","reverse","thioacetazone",null,906]
["mmaA4 upstream",737204,737267,"intergenic",null,"reverse","thioacetazone",null,64]
["mmaA3",737268,738149,"CDS","Rv0643c","reverse","isoniazid, ethionamide, prothionamide",null,882]
["mmaA3 upstream",738150,738296,"intergenic",null,"reverse","isoniazid, ethionamide, prothionamide",null,147]
["mmaA2",738297,739160,"CDS","Rv0644c","reverse","thioacetazone",null,864]
["mmaA2 upstream",739161,739326,"intergenic",null,"reverse","thioacetazone",null,166]
["rpoB upstream",759310,759806,"intergenic",null,"forward","rifampicin, rifabutin",null,497]
["rpoB",759807,763325,"CDS","Rv0667","forward","rifampicin, rifabutin",null,3519]
["rpoC upstream",763326,763369,"intergenic",null,"forward","compensates for rpoB mutations",null,44]
["rpoC",763370,767320,"CDS","Rv0668","forward","compensates for rpoB mutations",null,3951]
["mmpL5,mmpS5",775586,778905,"CDS","Rv0676c","reverse","bedaquiline, clofazimine",null,3320]
["mmpR upstream",778906,778989,"intergenic",null,"forward","bedaquiline, clofazimine","mmpS5-mmpR intergenic",84]
["mmpR",778990,779487,"CDS","Rv0678","forward","bedaquiline, clofazimine",null,498]
["rpsL upstream",781312,781559,"intergenic",null,"forward","streptomycin",null,248]
["rpsL",781560,781934,"CDS","Rv0682","forward","streptomycin",null,375]
["rplC upstream",800793,800808,"intergenic",null,"forward","linezolid",null,16]
["rplC",800809,801462,"CDS","Rv0701","forward","linezolid",null,654]
["rpfB upstream",1127884,1128090,"intergenic",null,"forward","clarithromycin",null,207]
["rpfB, ksgA",1128091,1130105,"CDS","Rv1009, Rv1010","forward","clarithromycin",null,2015]
["mshB upstream",1300125,1300303,"intergenic",null,"forward","isoniazid",null,179]
["mshB",1300304,1301215,"CDS","Rv1170","forward","isoniazid",null,912]
["fbiC upstream",1302682,1302930,"intergenic",null,"forward","delamanid, PA-824",null,249]
["fbiC",1302931,1305501,"CDS","Rv1173","forward","delamanid, PA-824",null,2571]
["sigI upstream",1332011,1332091,"intergenic",null,"forward","isoniazid",null,81]
["sigI",1332092,1332964,"CDS","Rv1189","forward","isoniazid",null,873]
["folP2 upstream",1351126,1351190,"intergenic",null,"forward","co-trimoxazole",null,65]
["folP2",1351191,1352147,"CDS","Rv1207","forward","co-trimoxazole",null,957]
["tap",1406081,1407340,"CDS","Rv1258c","reverse","streptomycin, PAS",null,1260]
["tap upstream",1407341,1408238,"CDS","Rv1259","reverse","streptomycin, PAS","tap upstream region covers udgB CDS",898]
["embR",1416181,1417347,"CDS","Rv1267c","reverse","ethambutol",null,1167]
["embR upstream",1417348,1417657,"intergenic",null,"reverse","ethambutol",null,310]
["atpE upstream",1460997,1461044,"intergenic",null,"forward","bedaquiline",null,48]
["atpE",1461045,1461290,"CDS","Rv1305","forward","bedaquiline",null,246]
["rrs upstream",1471743,1471845,"intergenic",null,"forward","streptomycin, amikacin, kanamycin, capreomycin",null,103]
["rrs",1471846,1473382,"rRNA","Rvnr01","forward","streptomycin, amikacin, kanamycin, capreomycin",null,1537]
["rrl upstream",1473383,1473657,"intergenic",null,"forward","linezolid, capreomycin, clarithromycin",null,275]
["rrl",1473658,1476795,"rRNA","Rvnr02","forward","linezolid, capreomycin, clarithromycin",null,3138]
["ldtD upstream",1611271,1611433,"intergenic",null,"forward","beta-lactams",null,163]
["ldtD",1611434,1612249,"CDS","Rv1433","forward","beta-lactams",null,816]
["fabG1 upstream",1673300,1673439,"intergenic",null,"forward","isoniazid, ethionamide, prothionamide",null,140]
["fabG1",1673440,1674183,"CDS","Rv1483","forward","isoniazid, ethionamide, prothionamide",null,744]
["inhA upstream",1674184,1674201,"intergenic",null,"forward","isoniazid, ethionamide, prothionamide",null,18]
["inhA",1674202,1675011,"CDS","Rv1484","forward","isoniazid, ethionamide, prothionamide",null,810]
["pykA upstream",1816082,1816188,"intergenic",null,"forward","cycloserine",null,107]
["pykA",1816189,1817607,"CDS","Rv1617","forward","cycloserine",null,1419]
["rpsA upstream",1833380,1833541,"intergenic",null,"forward","pyrazinamide",null,162]
["rpsA",1833542,1834987,"CDS","Rv1630","forward","pyrazinamide",null,1446]
["tlyA",1917940,1918746,"CDS","Rv1694","forward","capreomycin",null,807]
["cycA",1929786,1931456,"CDS","Rv1704c","reverse","cycloserine",null,1671]
["cycA upstream",1931457,1932654,"intergenic",null,"reverse","cycloserine","cycA TSS covers PPE22 CDS",1198]
["eccB5 upstream",2017477,2017739,"intergenic",null,"forward","moxifloxacin, gatifloxacin, ofloxacin, levofloxacin",null,263]
["eccB5,eccC5",2017740,2023432,"CDS","Rv1782,Rv1783","forward","moxifloxacin, gatifloxacin, ofloxacin, levofloxacin",null,5693]
["ndh",2101651,2103042,"CDS","Rv1854c","reverse","isoniazid, ethionamide, prothionamide, clofazimine, thioridazine",null,1392]
["ndh upstream",2103043,2103183,"intergenic",null,"reverse","isoniazid, ethionamide, prothionamide, clofazimine, thioridazine",null,141]
["katG",2153889,2156111,"CDS","Rv1908c","reverse","isoniazid",null,2223]
["katG upstream",2156112,2156148,"intergenic",null,"reverse","isoniazid",null,37]
["furA",2156149,2156592,"CDS","Rv1909c","reverse","isoniazid",null,444]
["furA upstream",2156593,2156705,"intergenic",null,"reverse","isoniazid",null,113]
["Rv1979c",2221719,2223164,"CDS","Rv1979c","reverse","bedaquiline, clofazimine",null,1446]
["Rv1979c upstream",2223165,2223342,"intergenic",null,"reverse","bedaquiline, clofazimine",null,178]
["erm(37) upstream",2231455,2231679,"intergenic",null,"forward","clarithromycin",null,225]
["erm(37)",2231680,2232219,"CDS","Rv1988","forward","clarithromycin",null,540]
["pncA",2288681,2289241,"CDS","Rv2043c","reverse","pyrazinamide",null,561]
["pncA upstream",2289242,2289281,"intergenic",null,"reverse","pyrazinamide",null,40]
["blaC",2325886,2326809,"CDS","Rv2068c","reverse","beta-lactams",null,924]
["blaC upstream",2326810,2326943,"intergenic",null,"reverse","beta-lactams",null,134]
["mshC",2391215,2392459,"CDS","Rv2130c","reverse","isoniazid, ethionamide, prothionamide",null,1245]
["mshC upstream",2392460,2392516,"intergenic",null,"reverse","isoniazid, ethionamide, prothionamide",null,57]
["kasA",2518115,2519365,"CDS","Rv2245","forward","isoniazid",null,1251]
["eis",2714124,2715332,"CDS","Rv2416c","reverse","kanamycin",null,1209]
["eis upstream",2715333,2715471,"intergenic",null,"reverse","kanamycin",null,139]
["ahpC upstream",2726088,2726192,"intergenic",null,"forward","compensates for KatG deficit",null,105]
["ahpC",2726193,2726780,"CDS","Rv2428","forward","compensates for KatG deficit",null,588]
["folC",2746135,2747598,"CDS","Rv2447c","reverse","PAS",null,1464]
["ldtB",2834109,2835335,"CDS","Rv2518c","reverse","beta-lactams",null,1227]
["ldtB upstream",2835336,2835493,"intergenic",null,"reverse","beta-lactams",null,158]
["pepQ",2859300,2860418,"CDS","Rv2535c","reverse","bedaquiline, clofazimine",null,1119]
["pepQ upstream",2860419,2860451,"intergenic",null,"reverse","bedaquiline, clofazimine",null,33]
["Rv2671 upstream",2985731,2986838,"CDS","Rv2670c","forward","PAS","Rv2671 upstream region covers Rv2670c CDS",1108]
["Rv2671",2986839,2987615,"CDS","Rv2671","forward","PAS",null,777]
["Rv2731",3043026,3044378,"CDS","Rv2731","forward","pyrazinamide",null,1353]
["thyX",3067193,3067945,"CDS","Rv2754c","reverse","compensates for ThyA deficit",null,753]
["thyX upstream",3067946,3068188,"intergenic",null,"reverse","compensates for ThyA deficit",null,243]
["dfrA",3073130,3073609,"CDS","Rv2763c","reverse","PAS, co-trimoxazole",null,480]
["dfrA upstream",3073610,3073679,"intergenic",null,"reverse","PAS, co-trimoxazole",null,70]
["thyA",3073680,3074471,"CDS","Rv2764c","reverse","PAS",null,792]
["thyA upstream",3074472,3074635,"intergenic",null,"reverse","PAS",null,164]
["ald upstream",3086755,3086819,"intergenic",null,"forward","cycloserine",null,65]
["ald",3086820,3087935,"CDS","Rv2780","forward","cycloserine",null,1116]
["gpsI",3090339,3092597,"CDS","Rv2783c","reverse","pyrazinamide",null,2259]
["gpsI upstream",3092598,3092950,"intergenic",null,"reverse","pyrazinamide",null,353]
["dacB2 upstream",3218271,3218338,"CDS",null,"forward","beta-lactams",null,68]
["dacB2",3218339,3219214,"CDS","Rv2911","forward","beta-lactams",null,876]
["ddlA",3336796,3337917,"CDS","Rv2981c","reverse","cycloserine",null,1122]
["ddlA upstream",3337918,3337994,"intergenic",null,"reverse","cycloserine",null,77]
["serB2",3401933,3403162,"CDS","Rv3042c","reverse","clofazimine",null,1230]
["serB2 upstream",3403163,3403199,"intergenic",null,"reverse","clofazimine",null,37]
["mymA upstream",3448427,3448503,"intergenic",null,"forward","isoniazid, ethionamide, prothionamide",null,77]
["mymA",3448504,3449991,"CDS","Rv3083","forward","isoniazid, ethionamide, prothionamide",null,1488]
["Rv3169",3537238,3538362,"CDS","Rv3169","forward","pyrazinamide",null,1125]
["whiB7",3568401,3568679,"CDS","Rv3197A","reverse","streptomycin, kanamycin, clarithromycin, PAS",null,279]
["whiB7 upstream",3568680,3569108,"intergenic",null,"reverse","streptomycin, kanamycin, clarithromycin, PAS",null,429]
["nudC",3571602,3572543,"CDS","Rv3199c","reverse","isoniazid, ethionamide, prothionamide",null,942]
["nudC upstream",3572544,3572601,"intergenic",null,"reverse","isoniazid, ethionamide, prothionamide",null,58]
["fbiA upstream",3640142,3640542,"intergenic",null,"forward","delamanid, PA-824",null,401]
["fbiA,B",3640543,3642881,"CDS","Rv3261,Rv3262","forward","delamanid, PA-824",null,2339]
["alr",3840194,3841348,"CDS","Rv3423c","reverse","cycloserine",null,1155]
["alr upstream",3841349,3841713,"intergenic",null,"reverse","cycloserine",null,365]
["rpoA",3877464,3878507,"CDS","Rv3457c","reverse","compensates for rpoB mutations",null,1044]
["rpoA upstream",3878508,3878658,"intergenic",null,"reverse","compensates for rpoB mutations",null,151]
["ddn upstream",3986733,3986843,"intergenic",null,"forward","delamanid, PA-824",null,111]
["ddn",3986844,3987299,"CDS","Rv3547","forward","delamanid, PA-824",null,456]
["nat (nhoA)",4007331,4008182,"CDS","Rv3566c","reverse","isoniazid, PAS",null,852]
["nat upstream",4008183,4008433,"CDS","Rv3566A","reverse","isoniazid, PAS","nat upstream region covers Rv3566A CDS",251]
["panD",4043862,4044281,"CDS","Rv3601c","reverse","pyrazinamide",null,420]
["folP1",4049138,4049980,"CDS","Rv3608c","reverse","PAS, co-trimoxazole",null,843]
["folP1 upstream",4049981,4050585,"CDS","Rv3609c","reverse","PAS, co-trimoxazole","folP1 upstream region covers folE CDS",605]
["aftA,embC",4237932,4243147,"CDS","Rv3792,Rv3793","forward","ethambutol",null,5216]
["embA upstream",4243148,4243232,"intergenic",null,"forward","ethambutol","increases also embB transcription",85]
["embA,embB",4243233,4249810,"CDS","Rv3794,Rv3795","forward","ethambutol",null,6578]
["ubiA",4268925,4269833,"CDS","Rv3806c","reverse","ethambutol",null,909]
["ubiA upstream",4269834,4269839,"intergenic",null,"reverse","ethambutol",null,6]
["ethA",4326004,4327473,"CDS","Rv3854c","reverse","ethionamide, prothionamide, thioacetazone",null,1470]
["ethA upstream",4327474,4327548,"intergenic",null,"reverse","ethionamide, prothionamide, thioacetazone","ethA-ethR intergenic",75]
["ethR",4327549,4328199,"CDS","Rv3855","forward","ethionamide, prothionamide, thioacetazone",null,651]
["gidB",4407528,4408202,"CDS","Rv3919c","reverse","streptomycin",null,675]
["gidB upstream",4408203,4408333,"intergenic",null,"reverse","streptomycin",null,131]
["ppsA upstream",3243697,3245444,"CDS",null,"forward","pyrazinamide",null,1748]
["ppsA",3245445,3251075,"CDS","Rv2931","forward","pyrazinamide",null,5631]
["ppsB",3251072,3255688,"CDS","Rv2932","forward","pyrazinamide",null,4617]
["ppsC",3255685,3262251,"CDS","Rv2933","forward","pyrazinamide",null,6567]
["ppsD",3262248,3267731,"CDS","Rv2934","forward","pyrazinamide",null,5484]
["mas",3276380,3282715,"CDS","Rv2940c","reverse","pyrazinamide",null,6336]
["mas upstream",3282716,3283334,"intergenic",null,"reverse","pyrazinamide",null,619]
["Rv0191 upstream",222162,222288,"intergenic",null,"forward","pyrazinamide",null,127]
["Rv0191",222289,223530,"CDS","Rv0191","forward","pyrazinamide",null,1242]
["Rv1667c",1893577,1894230,"CDS","Rv1667c","reverse","pyrazinamide",null,654]
["Rv1667c upstream",1894231,1895342,"CDS",null,"reverse","pyrazinamide",null,1112]
["Rv3008 upstream",3366451,3366643,"intergenic",null,"forward","pyrazinamide",null,193]
["Rv3008",3366644,3367267,"CDS","Rv3008","forward","pyrazinamide",null,624]
["proZ",4201894,4202613,"CDS","Rv3756c","reverse","pyrazinamide",null,720]
["proZ upstream",4202614,4203299,"CDS",null,"reverse","pyrazinamide",null,686]
["clpC1 (clpC)",4038158,4040704,"CDS","Rv3596c","reverse","pyrazinamide",null,2547]
["clpC1 upstream",4040705,4040878,"intergenic",null,"reverse","pyrazinamide",null,174]
["atpC upstream",1467302,1467314,"intergenic",null,"forward","bedaquiline",null,13]
["atpC",1467315,1467680,"CDS","Rv1311","forward","bedaquiline",null,366]
["crfA upstream",2718173,2718664,"CDS",null,"forward","beta-lactams",null,492]
["crfA",2718665,2719060,"new ORF","n.a.","forward","beta-lactams","please note that this gene does not exist in the current annotation of H37Rv. This new gene overlaps with nadD and the nadD-Rv2423 inter-genic region. The start and stop of the gene shown here refer to NC_000962.3, which differs to the position in the H37Rv genome used in PMID:28069655 that describes this gene.",396]