TB-Profiler result

Run: SRR18003004
Summary

Run ID: SRR18003004

Sample name:

Date: 03-04-2023 19:13:35

Number of reads: 1800313

Percentage reads mapped: 44.97

Strain: lineage2.2.2

Drug-resistance: Pre-XDR-TB

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage2 East-Asian Beijing RD105 0.99
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 1.0
lineage2.2.2 East-Asian (Beijing) Beijing-RD105/RD207 RD105;RD207 0.98
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
gyrA 7582 p.Asp94Gly missense_variant 0.97 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
rpoB 761155 p.Ser450Leu missense_variant 0.92 rifampicin
rpsL 781822 p.Lys88Arg missense_variant 1.0 streptomycin
rrs 1472644 n.799C>T non_coding_transcript_exon_variant 0.34 streptomycin
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.24 streptomycin
rrs 1473246 n.1401A>G non_coding_transcript_exon_variant 0.17 kanamycin, capreomycin, aminoglycosides, amikacin
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.44 kanamycin, capreomycin, aminoglycosides, amikacin
rrs 1473329 n.1484G>T non_coding_transcript_exon_variant 0.34 kanamycin, capreomycin, aminoglycosides, amikacin
katG 2155168 p.Ser315Thr missense_variant 0.9 isoniazid
pncA 2289096 p.Asp49Ala missense_variant 1.0 pyrazinamide
embB 4248003 p.Gln497Arg missense_variant 1.0 ethambutol
ethA 4327233 c.240delC frameshift_variant 1.0 ethionamide
gid 4408100 c.102delG frameshift_variant 1.0 streptomycin
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491247 c.465C>T synonymous_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.32
rpoB 759940 p.Pro45Arg missense_variant 1.0
rpoB 761974 p.His723Leu missense_variant 0.12
rpoB 762080 c.2274G>C synonymous_variant 0.12
rpoB 762085 p.Ala760Glu missense_variant 0.12
rpoB 762143 c.2337T>C synonymous_variant 0.15
rpoB 762149 c.2343G>C synonymous_variant 0.15
rpoB 762156 p.Val784Ile missense_variant 0.16
rpoB 762167 c.2361T>C synonymous_variant 0.12
rpoB 762176 c.2370T>C synonymous_variant 0.16
rpoB 762177 p.Arg791Thr missense_variant 0.17
rpoB 762181 p.Asp792Ala missense_variant 0.17
rpoB 762185 c.2379G>C synonymous_variant 0.18
rpoB 762194 c.2388G>C synonymous_variant 0.19
rpoB 762200 c.2394C>T synonymous_variant 0.2
rpoB 762218 c.2412T>C synonymous_variant 0.19
rpoB 762233 c.2427G>C synonymous_variant 0.15
rpoB 762234 p.Pro810Ser missense_variant 0.16
rpoB 762245 c.2439G>C synonymous_variant 0.15
rpoB 762254 c.2448T>C synonymous_variant 0.16
rpoB 762855 p.Val1017Ile missense_variant 0.14
rpoB 762858 p.Thr1018Ser missense_variant 0.14
rpoC 762863 c.-507T>G upstream_gene_variant 0.13
rpoB 762871 p.Met1022Thr missense_variant 0.14
rpoB 762878 p.Ile1024Met missense_variant 0.14
rpoB 762879 p.Met1025Leu missense_variant 0.14
rpoC 762887 c.-483G>C upstream_gene_variant 0.14
rpoC 762899 c.-471G>C upstream_gene_variant 0.14
rpoC 762926 c.-444C>G upstream_gene_variant 0.17
rpoC 762929 c.-441G>C upstream_gene_variant 0.19
rpoC 762947 c.-423C>G upstream_gene_variant 0.21
rpoC 762971 c.-399G>C upstream_gene_variant 0.25
rpoC 762980 c.-390T>C upstream_gene_variant 0.24
rpoC 762989 c.-381G>C upstream_gene_variant 0.2
rpoC 762995 c.-375G>C upstream_gene_variant 0.2
rpoB 763005 p.Cys1067Val missense_variant 0.2
rpoB 763014 p.Met1070Leu missense_variant 0.2
rpoB 763017 p.Gln1071Glu missense_variant 0.2
rpoC 763028 c.-342T>C upstream_gene_variant 0.19
rpoC 763031 c.-339T>C upstream_gene_variant 0.98
rpoB 763038 p.Thr1078Ala missense_variant 0.21
rpoC 763043 c.-327G>C upstream_gene_variant 0.21
rpoC 763053 c.-317T>C upstream_gene_variant 0.19
rpoC 763067 c.-303C>G upstream_gene_variant 0.12
rpoC 763070 c.-300T>C upstream_gene_variant 0.22
rpoB 763077 p.Val1091Thr missense_variant 0.17
rpoC 763103 c.-267G>C upstream_gene_variant 0.12
rpoC 764521 c.1152T>C synonymous_variant 0.12
rpoC 764536 c.1167G>C synonymous_variant 0.16
rpoC 764543 p.Thr392Ala missense_variant 0.13
rpoC 764548 c.1179G>C synonymous_variant 0.15
rpoC 764573 p.Leu402Ile missense_variant 0.17
rpoC 764578 c.1209C>G synonymous_variant 0.17
rpoC 764581 c.1212T>C synonymous_variant 0.17
rpoC 764582 p.Leu405Met missense_variant 0.19
rpoC 764602 c.1233C>T synonymous_variant 0.16
rpoC 764605 c.1236G>T synonymous_variant 0.16
rpoC 764611 c.1242G>T synonymous_variant 0.12
rpoC 764632 c.1263T>C synonymous_variant 0.17
rpoC 764647 c.1278C>T synonymous_variant 0.14
rpoC 764650 c.1281G>T synonymous_variant 0.13
rpoC 764653 c.1284G>C synonymous_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776356 p.Leu709Ile missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472068 n.223T>G non_coding_transcript_exon_variant 0.12
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.2
rrs 1472078 n.233C>T non_coding_transcript_exon_variant 0.24
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.16
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.18
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.42
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.15
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.15
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.37
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.37
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.37
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.72
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.38
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.38
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.31
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.26
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.53
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.18
rrs 1472412 n.567A>G non_coding_transcript_exon_variant 0.2
rrs 1472416 n.571C>T non_coding_transcript_exon_variant 0.18
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.17
rrs 1472427 n.582T>G non_coding_transcript_exon_variant 0.17
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.16
rrs 1472436 n.591G>T non_coding_transcript_exon_variant 0.16
rrs 1472437 n.592T>G non_coding_transcript_exon_variant 0.16
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 0.16
rrs 1472448 n.603T>C non_coding_transcript_exon_variant 0.17
rrs 1472449 n.604C>T non_coding_transcript_exon_variant 0.16
rrs 1472450 n.605A>C non_coding_transcript_exon_variant 0.16
rrs 1472451 n.606C>T non_coding_transcript_exon_variant 0.16
rrs 1472462 n.617T>G non_coding_transcript_exon_variant 0.19
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.18
rrs 1472473 n.628G>T non_coding_transcript_exon_variant 0.18
rrs 1472474 n.629C>G non_coding_transcript_exon_variant 0.17
rrs 1472476 n.631A>G non_coding_transcript_exon_variant 0.23
rrs 1472484 n.639A>T non_coding_transcript_exon_variant 0.15
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.16
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.46
rrs 1472496 n.651T>A non_coding_transcript_exon_variant 0.36
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.46
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.15
rrs 1472513 n.668T>C non_coding_transcript_exon_variant 0.19
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.13
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.13
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.15
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.15
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.15
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.15
rrs 1472549 n.704G>A non_coding_transcript_exon_variant 0.17
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.36
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.14
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.34
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.16
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.15
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.61
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.17
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.38
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.16
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.17
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.37
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.22
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 0.17
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.52
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.69
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.25
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.49
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.26
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.29
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.44
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.19
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 0.17
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.24
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.48
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.24
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.23
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.24
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.19
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.16
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.17
rrs 1472825 n.980G>A non_coding_transcript_exon_variant 0.17
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.17
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.33
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.27
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.31
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.27
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.6
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.6
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.44
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.31
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.29
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.64
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.31
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.34
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.74
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.71
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.76
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.74
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.24
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.25
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.71
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.71
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.71
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.6
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.69
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.69
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.7
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 0.43
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.73
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.28
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.3
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.77
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.77
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.24
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.23
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.28
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.83
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.82
rrs 1473270 n.1425G>A non_coding_transcript_exon_variant 0.47
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.6
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.75
rrs 1473277 n.1432G>A non_coding_transcript_exon_variant 0.26
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.68
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.56
rrs 1473305 n.1460G>T non_coding_transcript_exon_variant 0.42
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.73
rrl 1474124 n.467G>C non_coding_transcript_exon_variant 0.13
rrl 1474125 n.468C>G non_coding_transcript_exon_variant 0.13
rrl 1474130 n.473C>T non_coding_transcript_exon_variant 0.17
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.16
rrl 1474141 n.484G>C non_coding_transcript_exon_variant 0.17
rrl 1474142 n.485C>G non_coding_transcript_exon_variant 0.16
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.18
rrl 1474155 n.498G>A non_coding_transcript_exon_variant 0.18
rrl 1474164 n.507C>T non_coding_transcript_exon_variant 0.18
rrl 1474171 n.514C>T non_coding_transcript_exon_variant 0.16
rrl 1474181 n.524C>T non_coding_transcript_exon_variant 0.17
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 0.27
rrl 1474185 n.528G>A non_coding_transcript_exon_variant 0.15
rrl 1474197 n.540C>T non_coding_transcript_exon_variant 0.29
rrl 1474199 n.542G>A non_coding_transcript_exon_variant 0.16
rrl 1474201 n.545T>C non_coding_transcript_exon_variant 0.17
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.55
rrl 1474269 n.612C>T non_coding_transcript_exon_variant 0.32
rrl 1474271 n.614A>G non_coding_transcript_exon_variant 0.17
rrl 1474272 n.615C>T non_coding_transcript_exon_variant 0.17
rrl 1474275 n.618T>G non_coding_transcript_exon_variant 0.49
rrl 1474280 n.623C>T non_coding_transcript_exon_variant 0.25
rrl 1474281 n.624A>G non_coding_transcript_exon_variant 0.25
rrl 1474310 n.653T>G non_coding_transcript_exon_variant 0.43
rrl 1474316 n.659T>C non_coding_transcript_exon_variant 0.25
rrl 1474317 n.660G>A non_coding_transcript_exon_variant 0.25
rrl 1474348 n.691C>T non_coding_transcript_exon_variant 0.45
rrl 1474351 n.694G>T non_coding_transcript_exon_variant 0.44
rrl 1474353 n.696A>T non_coding_transcript_exon_variant 0.28
rrl 1474354 n.697C>T non_coding_transcript_exon_variant 0.38
rrl 1474356 n.699T>C non_coding_transcript_exon_variant 0.11
rrl 1474359 n.702C>G non_coding_transcript_exon_variant 0.13
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.43
rrl 1474383 n.726G>T non_coding_transcript_exon_variant 0.32
rrl 1474384 n.727C>G non_coding_transcript_exon_variant 0.14
rrl 1474387 n.730C>T non_coding_transcript_exon_variant 0.34
rrl 1474454 n.797G>A non_coding_transcript_exon_variant 0.2
rrl 1474467 n.810A>G non_coding_transcript_exon_variant 0.25
rrl 1474476 n.819C>T non_coding_transcript_exon_variant 0.26
rrl 1474483 n.826C>T non_coding_transcript_exon_variant 0.22
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 0.55
rrl 1474495 n.838G>A non_coding_transcript_exon_variant 0.25
rrl 1474496 n.839C>A non_coding_transcript_exon_variant 0.38
rrl 1474497 n.840G>C non_coding_transcript_exon_variant 0.38
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 0.38
rrl 1474507 n.850G>T non_coding_transcript_exon_variant 0.3
rrl 1474508 n.851C>T non_coding_transcript_exon_variant 0.26
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.7
rrl 1474527 n.870T>C non_coding_transcript_exon_variant 0.19
rrl 1474528 n.871T>A non_coding_transcript_exon_variant 0.19
rrl 1474529 n.872A>C non_coding_transcript_exon_variant 0.65
rrl 1474530 n.873G>A non_coding_transcript_exon_variant 0.53
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.72
rrl 1474539 n.882C>T non_coding_transcript_exon_variant 0.51
rrl 1474540 n.883T>G non_coding_transcript_exon_variant 0.64
rrl 1474541 n.884G>T non_coding_transcript_exon_variant 0.18
rrl 1474542 n.885A>G non_coding_transcript_exon_variant 0.19
rrl 1474551 n.894G>A non_coding_transcript_exon_variant 0.23
rrl 1474558 n.901G>A non_coding_transcript_exon_variant 0.42
rrl 1474584 n.927C>T non_coding_transcript_exon_variant 0.43
rrl 1474626 n.969T>C non_coding_transcript_exon_variant 0.25
rrl 1474627 n.970G>A non_coding_transcript_exon_variant 0.39
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.38
rrl 1474634 n.977T>C non_coding_transcript_exon_variant 0.26
rrl 1474636 n.979A>C non_coding_transcript_exon_variant 0.54
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.56
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.69
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.72
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 0.37
rrl 1474640 n.983C>T non_coding_transcript_exon_variant 0.27
rrl 1474672 n.1015C>T non_coding_transcript_exon_variant 0.3
rrl 1474677 n.1020A>G non_coding_transcript_exon_variant 0.73
rrl 1474694 n.1037C>T non_coding_transcript_exon_variant 0.24
rrl 1474722 n.1065T>C non_coding_transcript_exon_variant 0.28
rrl 1474723 n.1066G>A non_coding_transcript_exon_variant 0.18
rrl 1474734 n.1077G>T non_coding_transcript_exon_variant 0.63
rrl 1474736 n.1079C>T non_coding_transcript_exon_variant 0.2
rrl 1474749 n.1092C>T non_coding_transcript_exon_variant 0.67
rrl 1474751 n.1094G>A non_coding_transcript_exon_variant 0.14
rrl 1474753 n.1097delC non_coding_transcript_exon_variant 0.64
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.71
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.23
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.7
rrl 1474780 n.1123C>T non_coding_transcript_exon_variant 0.47
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.7
rrl 1474783 n.1126G>A non_coding_transcript_exon_variant 0.2
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.77
rrl 1474801 n.1144G>A non_coding_transcript_exon_variant 0.42
rrl 1474802 n.1145T>C non_coding_transcript_exon_variant 0.44
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.69
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.26
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.59
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.58
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 0.54
rrl 1474832 n.1175A>T non_coding_transcript_exon_variant 0.45
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.72
rrl 1474883 n.1226T>C non_coding_transcript_exon_variant 0.23
rrl 1474901 n.1244A>G non_coding_transcript_exon_variant 0.31
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.6
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.46
rrl 1474932 n.1275C>T non_coding_transcript_exon_variant 0.2
rrl 1474933 n.1276A>G non_coding_transcript_exon_variant 0.2
rrl 1474934 n.1277C>T non_coding_transcript_exon_variant 0.18
rrl 1475672 n.2015C>T non_coding_transcript_exon_variant 0.27
rrl 1475673 n.2016T>C non_coding_transcript_exon_variant 0.35
rrl 1475686 n.2029C>G non_coding_transcript_exon_variant 0.23
rrl 1475696 n.2039T>C non_coding_transcript_exon_variant 0.26
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.59
rrl 1475703 n.2046A>G non_coding_transcript_exon_variant 0.26
rrl 1475715 n.2058G>C non_coding_transcript_exon_variant 0.27
rrl 1475722 n.2065G>T non_coding_transcript_exon_variant 0.41
rrl 1475751 n.2094C>T non_coding_transcript_exon_variant 0.56
rrl 1475752 n.2095C>T non_coding_transcript_exon_variant 0.39
rrl 1475753 n.2096C>G non_coding_transcript_exon_variant 0.41
rrl 1475756 n.2099T>C non_coding_transcript_exon_variant 0.29
rrl 1475769 n.2112T>C non_coding_transcript_exon_variant 0.37
rrl 1475775 n.2118G>T non_coding_transcript_exon_variant 0.39
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.31
rrl 1475869 n.2212C>A non_coding_transcript_exon_variant 0.3
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.32
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.64
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.61
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.41
rrl 1475896 n.2239A>G non_coding_transcript_exon_variant 0.41
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.26
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.8
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.8
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 0.38
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.81
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.79
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.8
rrl 1475945 n.2288C>A non_coding_transcript_exon_variant 0.38
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.78
rrl 1475963 n.2306G>T non_coding_transcript_exon_variant 0.41
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.73
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.74
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.73
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 0.4
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.7
rrl 1475993 n.2336C>T non_coding_transcript_exon_variant 0.44
rrl 1475995 n.2338G>C non_coding_transcript_exon_variant 0.15
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.61
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.57
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.62
rrl 1476030 n.2373A>G non_coding_transcript_exon_variant 0.51
rrl 1476032 n.2375C>A non_coding_transcript_exon_variant 0.49
rrl 1476034 n.2377C>G non_coding_transcript_exon_variant 0.49
rrl 1476040 n.2383C>T non_coding_transcript_exon_variant 0.5
rrl 1476045 n.2388G>T non_coding_transcript_exon_variant 0.51
rrl 1476047 n.2390G>T non_coding_transcript_exon_variant 0.51
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.52
rrl 1476076 n.2419A>G non_coding_transcript_exon_variant 0.12
rrl 1476130 n.2473G>A non_coding_transcript_exon_variant 0.29
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.32
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.14
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.53
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.63
rrl 1476195 n.2538C>A non_coding_transcript_exon_variant 0.14
rrl 1476196 n.2539C>A non_coding_transcript_exon_variant 0.13
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.62
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.6
rrl 1476204 n.2547C>A non_coding_transcript_exon_variant 0.13
rrl 1476210 n.2553G>T non_coding_transcript_exon_variant 0.11
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 0.11
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.56
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.54
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.53
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.15
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.48
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.21
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.46
rrl 1476253 n.2596A>G non_coding_transcript_exon_variant 0.45
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.47
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.69
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.26
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.37
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.24
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.52
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.51
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.51
rrl 1476297 n.2640C>A non_coding_transcript_exon_variant 0.43
rrl 1476299 n.2642C>G non_coding_transcript_exon_variant 0.27
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.26
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.47
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.21
rrl 1476308 n.2651G>C non_coding_transcript_exon_variant 0.26
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.51
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.53
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.26
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.31
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.29
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.32
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.35
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.37
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.45
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.35
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.35
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.46
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.36
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.35
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.25
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.83
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.77
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.68
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.82
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.78
rrl 1476513 n.2856G>T non_coding_transcript_exon_variant 0.23
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.16
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.59
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.19
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.16
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.21
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.57
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.71
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.65
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.68
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.37
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.6
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.7
rrl 1476542 n.2885T>C non_coding_transcript_exon_variant 0.23
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.43
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.35
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.53
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.41
rrl 1476586 n.2929C>T non_coding_transcript_exon_variant 0.12
rrl 1476594 n.2937C>A non_coding_transcript_exon_variant 0.42
rrl 1476603 n.2946G>T non_coding_transcript_exon_variant 0.26
rrl 1476607 n.2950C>T non_coding_transcript_exon_variant 0.25
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.22
rrl 1476613 n.2956G>A non_coding_transcript_exon_variant 0.19
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.26
rrl 1476616 n.2959A>G non_coding_transcript_exon_variant 0.22
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.26
rrl 1476628 n.2971T>G non_coding_transcript_exon_variant 0.2
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.22
rrl 1476630 n.2973A>G non_coding_transcript_exon_variant 0.22
rpsA 1833970 c.429G>C synonymous_variant 0.19
rpsA 1833976 c.435C>T synonymous_variant 0.25
rpsA 1833979 c.438T>C synonymous_variant 0.27
rpsA 1833994 c.453G>C synonymous_variant 0.25
rpsA 1833997 c.456G>C synonymous_variant 0.24
rpsA 1834000 c.459G>C synonymous_variant 0.14
rpsA 1834009 c.468C>T synonymous_variant 0.14
rpsA 1834012 c.471G>C synonymous_variant 0.24
rpsA 1834015 c.474G>C synonymous_variant 0.23
rpsA 1834039 c.498C>T synonymous_variant 0.22
rpsA 1834040 p.Lys167Arg missense_variant 0.25
rpsA 1834051 c.510G>A synonymous_variant 0.22
rpsA 1834054 c.513C>G synonymous_variant 0.12
rpsA 1834069 c.528G>C synonymous_variant 0.13
rpsA 1834093 c.552G>C synonymous_variant 0.11
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834234 c.693G>C synonymous_variant 0.13
rpsA 1834240 c.699T>C synonymous_variant 0.12
rpsA 1834246 c.705G>T synonymous_variant 0.14
rpsA 1834249 c.708T>C synonymous_variant 0.19
rpsA 1834261 c.720A>G synonymous_variant 0.24
rpsA 1834264 c.723G>C synonymous_variant 0.24
rpsA 1834294 c.753G>C synonymous_variant 0.2
rpsA 1834298 p.Gln253Glu missense_variant 0.24
rpsA 1834306 c.765T>C synonymous_variant 0.25
rpsA 1834307 p.Asp256Gln missense_variant 0.25
rpsA 1834312 c.771G>A synonymous_variant 0.24
rpsA 1834327 c.786G>T synonymous_variant 0.25
rpsA 1834345 c.804C>T synonymous_variant 0.19
rpsA 1834348 c.807T>C synonymous_variant 0.2
rpsA 1834354 c.813G>C synonymous_variant 0.22
rpsA 1834357 c.816T>C synonymous_variant 0.19
rpsA 1834360 c.819G>C synonymous_variant 0.19
rpsA 1834361 c.820T>C synonymous_variant 0.22
rpsA 1834366 c.825A>G synonymous_variant 0.15
rpsA 1834375 c.834G>C synonymous_variant 0.2
rpsA 1834378 c.837T>C synonymous_variant 0.2
rpsA 1834387 c.846C>T synonymous_variant 0.22
rpsA 1834417 c.876G>C synonymous_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101940 c.1097_1102delACAAGG disruptive_inframe_deletion 0.15
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2154828 c.1284G>A synonymous_variant 0.96
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223129 c.36C>T synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289469 c.-228C>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
rpoA 3878609 c.-102T>A upstream_gene_variant 0.18
clpC1 4039742 c.963C>T synonymous_variant 0.98
clpC1 4039850 c.855T>C synonymous_variant 0.11
clpC1 4039865 c.840T>C synonymous_variant 0.15
clpC1 4039873 p.Thr278Ser missense_variant 0.16
clpC1 4039875 p.Asn277Arg missense_variant 0.16
clpC1 4039880 c.825G>A synonymous_variant 0.18
clpC1 4039886 c.819C>G synonymous_variant 0.18
clpC1 4039889 c.816G>C synonymous_variant 0.2
clpC1 4039898 c.807C>G synonymous_variant 0.25
clpC1 4039904 c.801A>G synonymous_variant 0.31
clpC1 4039907 c.798G>A synonymous_variant 0.28
clpC1 4039928 c.775_777delAGCinsTCG synonymous_variant 0.17
clpC1 4039934 c.771G>A synonymous_variant 0.26
clpC1 4039937 c.768G>C synonymous_variant 0.28
clpC1 4039943 c.762G>C synonymous_variant 0.26
clpC1 4039946 c.759A>C synonymous_variant 0.27
clpC1 4039952 c.753T>C synonymous_variant 0.25
clpC1 4039958 c.747G>C synonymous_variant 0.27
clpC1 4039964 c.741C>G synonymous_variant 0.25
clpC1 4039967 p.Gln246His missense_variant 0.24
clpC1 4039970 c.735G>A synonymous_variant 0.12
clpC1 4039982 c.723G>C synonymous_variant 0.28
clpC1 4039991 c.714G>C synonymous_variant 0.22
clpC1 4039994 p.Glu237Asp missense_variant 0.25
clpC1 4039997 c.708C>T synonymous_variant 0.21
clpC1 4040009 c.696C>T synonymous_variant 0.23
clpC1 4040015 c.690G>A synonymous_variant 0.23
clpC1 4040021 c.684A>C synonymous_variant 0.26
clpC1 4040024 c.681A>G synonymous_variant 0.26
clpC1 4040027 c.678C>G synonymous_variant 0.2
clpC1 4040033 c.672G>C synonymous_variant 0.19
clpC1 4040042 c.663C>T synonymous_variant 0.21
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4246563 p.Leu17Trp missense_variant 0.11
embB 4246567 c.54G>T synonymous_variant 0.14
aftB 4267647 p.Asp397Gly missense_variant 1.0
whiB6 4338371 p.Thr51Ala missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.95
gid 4407927 p.Glu92Asp missense_variant 1.0