TB-Profiler result

Run: SRR18003030
Summary

Run ID: SRR18003030

Sample name:

Date: 03-04-2023 19:14:50

Number of reads: 1113073

Percentage reads mapped: 33.51

Strain: lineage2.2.1

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 1.0
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.99
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 1.0 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
rpoB 761127 p.Ser441Ala missense_variant 0.28 rifampicin
rpoB 761155 p.Ser450Tyr missense_variant 0.21 rifampicin
rpoB 761196 p.Leu464Met missense_variant 0.27 rifampicin
rrs 1472644 n.799C>T non_coding_transcript_exon_variant 0.72 streptomycin
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.27 streptomycin
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.94 kanamycin, capreomycin, aminoglycosides, amikacin
rrs 1473329 n.1484G>T non_coding_transcript_exon_variant 0.91 kanamycin, capreomycin, aminoglycosides, amikacin
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 9194 c.1893G>A synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 575927 p.Pro194Ser missense_variant 0.13
mshA 576108 p.Ala254Gly missense_variant 0.33
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 761001 p.Thr399Ala missense_variant 0.1
rpoB 761132 c.1326G>T synonymous_variant 0.27
rpoB 761133 c.1327T>C synonymous_variant 0.27
rpoB 761147 c.1341C>T synonymous_variant 0.23
rpoB 761150 c.1344A>T synonymous_variant 0.26
rpoB 761159 c.1353G>T synonymous_variant 0.21
rpoB 761165 c.1359G>C synonymous_variant 0.26
rpoB 761168 c.1362C>T synonymous_variant 0.22
rpoB 761180 c.1374A>C synonymous_variant 0.22
rpoB 761186 p.Glu460Asp missense_variant 0.21
rpoB 761189 c.1383T>C synonymous_variant 0.24
rpoB 761192 c.1386C>A synonymous_variant 0.21
rpoB 761195 c.1389G>C synonymous_variant 0.26
rpoB 761201 c.1395G>A synonymous_variant 0.23
rpoB 761204 c.1398C>T synonymous_variant 0.25
rpoB 761207 c.1401C>A synonymous_variant 0.22
rpoB 761219 c.1413G>C synonymous_variant 0.28
rpoB 761234 c.1428G>C synonymous_variant 0.24
rpoB 761243 c.1437G>C synonymous_variant 0.17
rpoB 761246 c.1440C>T synonymous_variant 0.21
rpoB 761600 c.1794T>A synonymous_variant 0.18
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoB 763055 p.Leu1083Phe missense_variant 0.12
rpoC 763058 c.-312C>G upstream_gene_variant 0.12
rpoB 763059 p.Ile1085Val missense_variant 0.12
rpoC 763546 c.177A>G synonymous_variant 0.12
rpoC 763570 c.201G>C synonymous_variant 0.22
rpoC 763578 p.Phe70Tyr missense_variant 0.16
rpoC 763585 c.216C>G synonymous_variant 0.25
rpoC 763589 p.Ile74Val missense_variant 0.29
rpoC 763606 c.237C>G synonymous_variant 0.29
rpoC 763609 c.240C>G synonymous_variant 0.29
rpoC 763615 c.246G>C synonymous_variant 0.33
rpoC 763622 p.Ala85Ser missense_variant 0.37
rpoC 763633 c.264T>C synonymous_variant 0.35
rpoC 763636 c.267T>C synonymous_variant 0.28
rpoC 763642 c.273G>C synonymous_variant 0.33
rpoC 763647 p.Gly93Ala missense_variant 0.25
rpoC 763655 p.Glu96Lys missense_variant 0.24
rpoC 763660 c.291T>G synonymous_variant 0.29
rpoC 763663 c.294C>G synonymous_variant 0.24
rpoC 763672 c.303C>G synonymous_variant 0.22
rpoC 763696 c.327T>C synonymous_variant 0.21
rpoC 763699 c.330G>C synonymous_variant 0.17
rpoC 763708 c.339G>T synonymous_variant 0.17
rpoC 763723 c.354G>C synonymous_variant 0.12
rpoC 764185 c.816C>T synonymous_variant 0.13
rpoC 764560 c.1191T>G synonymous_variant 0.11
rpoC 764566 c.1197C>G synonymous_variant 0.12
rpoC 764722 c.1353G>C synonymous_variant 0.42
rpoC 764731 c.1362G>C synonymous_variant 0.4
rpoC 764737 c.1368G>C synonymous_variant 0.41
rpoC 764746 c.1377G>T synonymous_variant 0.5
rpoC 764755 p.Asp462Glu missense_variant 0.5
rpoC 764758 c.1389C>G synonymous_variant 0.5
rpoC 764760 p.Asn464Ser missense_variant 0.5
rpoC 764764 c.1395T>C synonymous_variant 0.5
rpoC 764767 c.1398G>T synonymous_variant 0.49
rpoC 764776 c.1407C>T synonymous_variant 0.5
rpoC 764797 c.1428G>T synonymous_variant 0.56
rpoC 764803 c.1434C>T synonymous_variant 0.59
rpoC 764804 p.Gln479Phe missense_variant 0.59
rpoC 764812 c.1443C>G synonymous_variant 0.57
rpoC 764815 c.1446A>G synonymous_variant 0.61
rpoC 764818 c.1449G>T synonymous_variant 0.59
rpoC 764827 c.1458G>T synonymous_variant 0.62
rpoC 764830 c.1461C>G synonymous_variant 0.56
rpoC 764839 c.1470C>T synonymous_variant 0.54
rpoC 764854 c.1485G>C synonymous_variant 0.5
rpoC 764858 c.1489T>C synonymous_variant 0.46
rpoC 764869 c.1500C>T synonymous_variant 0.32
rpoC 764875 c.1506C>T synonymous_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800897 p.Lys30Arg missense_variant 0.12
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471845 n.-1G>A upstream_gene_variant 0.17
rrs 1471979 n.134T>C non_coding_transcript_exon_variant 0.4
rrs 1472080 n.235G>A non_coding_transcript_exon_variant 0.5
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.84
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.87
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.84
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.77
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.98
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.89
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.99
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.13
rrs 1472282 n.437T>G non_coding_transcript_exon_variant 0.79
rrs 1472284 n.439C>T non_coding_transcript_exon_variant 0.62
rrs 1472286 n.441C>G non_coding_transcript_exon_variant 0.71
rrs 1472293 n.448C>A non_coding_transcript_exon_variant 0.71
rrs 1472297 n.453_465delGTCCGGGTTCTCT non_coding_transcript_exon_variant 0.71
rrs 1472315 n.470T>G non_coding_transcript_exon_variant 0.71
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.71
rrs 1472332 n.487A>G non_coding_transcript_exon_variant 0.71
rrs 1472333 n.488G>A non_coding_transcript_exon_variant 0.71
rrs 1472338 n.493A>G non_coding_transcript_exon_variant 0.71
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.83
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.62
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.22
rrs 1472396 n.551A>T non_coding_transcript_exon_variant 0.33
rrs 1472426 n.581T>G non_coding_transcript_exon_variant 0.29
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.4
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 0.4
rrs 1472439 n.594C>T non_coding_transcript_exon_variant 0.4
rrs 1472447 n.602C>T non_coding_transcript_exon_variant 0.33
rrs 1472448 n.603T>C non_coding_transcript_exon_variant 0.33
rrs 1472450 n.605A>G non_coding_transcript_exon_variant 0.33
rrs 1472451 n.606C>G non_coding_transcript_exon_variant 0.29
rrs 1472461 n.616G>C non_coding_transcript_exon_variant 0.33
rrs 1472462 n.617T>C non_coding_transcript_exon_variant 0.33
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.33
rrs 1472471 n.626G>A non_coding_transcript_exon_variant 0.44
rrs 1472476 n.631A>G non_coding_transcript_exon_variant 0.18
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.82
rrs 1472496 n.651T>A non_coding_transcript_exon_variant 0.74
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.83
rrs 1472513 n.668T>C non_coding_transcript_exon_variant 0.44
rrs 1472549 n.704G>A non_coding_transcript_exon_variant 0.45
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.78
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.77
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.91
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.73
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.13
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.74
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.84
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.95
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.23
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.73
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.24
rrs 1472670 n.825G>T non_coding_transcript_exon_variant 0.18
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.85
rrs 1472674 n.829T>G non_coding_transcript_exon_variant 0.66
rrs 1472675 n.830T>A non_coding_transcript_exon_variant 0.84
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.63
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.85
rrs 1472677 n.832C>T non_coding_transcript_exon_variant 0.64
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.26
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.69
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.23
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.26
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.7
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.27
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.28
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.26
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.62
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.12
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.25
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.33
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.33
rrs 1472880 n.1035G>A non_coding_transcript_exon_variant 0.67
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.93
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.9
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.9
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.93
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.91
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.98
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.89
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.88
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.96
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.98
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.98
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.97
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.97
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.96
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.96
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.95
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.94
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.97
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.97
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.96
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 0.92
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.96
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.94
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.94
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.95
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.95
rrs 1473270 n.1425G>A non_coding_transcript_exon_variant 0.9
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.97
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.96
rrs 1473305 n.1460G>T non_coding_transcript_exon_variant 0.9
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.95
rrl 1474124 n.467G>C non_coding_transcript_exon_variant 0.83
rrl 1474125 n.468C>G non_coding_transcript_exon_variant 0.71
rrl 1474130 n.473C>T non_coding_transcript_exon_variant 0.88
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.9
rrl 1474141 n.484G>C non_coding_transcript_exon_variant 0.7
rrl 1474142 n.485C>G non_coding_transcript_exon_variant 0.78
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 1.0
rrl 1474155 n.498G>A non_coding_transcript_exon_variant 0.8
rrl 1474164 n.507C>T non_coding_transcript_exon_variant 0.8
rrl 1474171 n.514C>T non_coding_transcript_exon_variant 0.8
rrl 1474174 n.517A>G non_coding_transcript_exon_variant 0.2
rrl 1474181 n.524C>T non_coding_transcript_exon_variant 1.0
rrl 1474182 n.525C>G non_coding_transcript_exon_variant 0.2
rrl 1474183 n.526T>G non_coding_transcript_exon_variant 0.2
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 0.8
rrl 1474185 n.528G>A non_coding_transcript_exon_variant 1.0
rrl 1474197 n.540C>T non_coding_transcript_exon_variant 1.0
rrl 1474199 n.542G>A non_coding_transcript_exon_variant 1.0
rrl 1474202 n.545T>C non_coding_transcript_exon_variant 1.0
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.98
rrl 1474269 n.612C>T non_coding_transcript_exon_variant 0.98
rrl 1474275 n.618T>G non_coding_transcript_exon_variant 0.96
rrl 1474280 n.623C>T non_coding_transcript_exon_variant 0.96
rrl 1474281 n.624A>G non_coding_transcript_exon_variant 0.96
rrl 1474284 n.631_633delCCT non_coding_transcript_exon_variant 0.95
rrl 1474293 n.637_651delCCTCTCCGGAGGAGG non_coding_transcript_exon_variant 0.95
rrl 1474310 n.653T>G non_coding_transcript_exon_variant 0.96
rrl 1474316 n.659T>C non_coding_transcript_exon_variant 0.96
rrl 1474317 n.660G>A non_coding_transcript_exon_variant 0.95
rrl 1474348 n.691C>T non_coding_transcript_exon_variant 0.91
rrl 1474351 n.694G>T non_coding_transcript_exon_variant 0.91
rrl 1474353 n.696A>T non_coding_transcript_exon_variant 0.91
rrl 1474354 n.697C>T non_coding_transcript_exon_variant 0.91
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.92
rrl 1474383 n.726G>T non_coding_transcript_exon_variant 0.77
rrl 1474387 n.730C>T non_coding_transcript_exon_variant 0.76
rrl 1474454 n.797G>A non_coding_transcript_exon_variant 0.5
rrl 1474467 n.810A>G non_coding_transcript_exon_variant 0.24
rrl 1474476 n.819C>T non_coding_transcript_exon_variant 0.74
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 0.91
rrl 1474496 n.839C>A non_coding_transcript_exon_variant 0.84
rrl 1474497 n.840G>C non_coding_transcript_exon_variant 0.79
rrl 1474505 n.848C>G non_coding_transcript_exon_variant 0.12
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 0.8
rrl 1474507 n.850G>T non_coding_transcript_exon_variant 0.81
rrl 1474508 n.851C>T non_coding_transcript_exon_variant 0.15
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.94
rrl 1474527 n.870T>C non_coding_transcript_exon_variant 0.18
rrl 1474529 n.872A>C non_coding_transcript_exon_variant 0.81
rrl 1474530 n.873G>A non_coding_transcript_exon_variant 0.8
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.99
rrl 1474539 n.882C>T non_coding_transcript_exon_variant 0.81
rrl 1474540 n.883T>G non_coding_transcript_exon_variant 0.82
rrl 1474542 n.885A>G non_coding_transcript_exon_variant 0.17
rrl 1474558 n.901G>A non_coding_transcript_exon_variant 0.91
rrl 1474584 n.927C>T non_coding_transcript_exon_variant 0.91
rrl 1474627 n.970G>A non_coding_transcript_exon_variant 0.87
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.87
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.94
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.95
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.96
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 0.86
rrl 1474672 n.1015C>T non_coding_transcript_exon_variant 0.87
rrl 1474674 n.1017A>C non_coding_transcript_exon_variant 0.83
rrl 1474675 n.1018C>A non_coding_transcript_exon_variant 0.84
rrl 1474676 n.1019T>C non_coding_transcript_exon_variant 0.93
rrl 1474677 n.1020A>G non_coding_transcript_exon_variant 0.94
rrl 1474694 n.1037C>T non_coding_transcript_exon_variant 0.82
rrl 1474709 n.1053_1056delTGGT non_coding_transcript_exon_variant 0.91
rrl 1474717 n.1060_1061insGTGAG non_coding_transcript_exon_variant 0.88
rrl 1474723 n.1066G>A non_coding_transcript_exon_variant 0.69
rrl 1474734 n.1077G>A non_coding_transcript_exon_variant 0.87
rrl 1474736 n.1079C>T non_coding_transcript_exon_variant 0.66
rrl 1474749 n.1092C>T non_coding_transcript_exon_variant 0.79
rrl 1474751 n.1094G>A non_coding_transcript_exon_variant 0.6
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.92
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.76
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.79
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.78
rrl 1474783 n.1126G>A non_coding_transcript_exon_variant 0.75
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.97
rrl 1474802 n.1145T>C non_coding_transcript_exon_variant 0.12
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.82
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.17
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.79
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.79
rrl 1474830 n.1173A>T non_coding_transcript_exon_variant 0.94
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 0.97
rrl 1474837 n.1180A>G non_coding_transcript_exon_variant 0.12
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.2
rrl 1474883 n.1226T>C non_coding_transcript_exon_variant 0.81
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.9
rrl 1474932 n.1275C>T non_coding_transcript_exon_variant 0.89
rrl 1475124 n.1467A>T non_coding_transcript_exon_variant 0.5
rrl 1475171 n.1514C>T non_coding_transcript_exon_variant 0.4
rrl 1475659 n.2002G>A non_coding_transcript_exon_variant 0.25
rrl 1475672 n.2015C>T non_coding_transcript_exon_variant 0.67
rrl 1475673 n.2016T>C non_coding_transcript_exon_variant 0.72
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.88
rrl 1475722 n.2065G>T non_coding_transcript_exon_variant 0.8
rrl 1475751 n.2094C>T non_coding_transcript_exon_variant 0.86
rrl 1475752 n.2095C>T non_coding_transcript_exon_variant 0.81
rrl 1475753 n.2096C>G non_coding_transcript_exon_variant 0.8
rrl 1475758 n.2101A>G non_coding_transcript_exon_variant 0.82
rrl 1475769 n.2112T>C non_coding_transcript_exon_variant 0.82
rrl 1475775 n.2118G>T non_coding_transcript_exon_variant 0.82
rrl 1475869 n.2212C>A non_coding_transcript_exon_variant 0.84
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.93
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.94
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.95
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.95
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.91
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.95
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.97
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.96
rrl 1475963 n.2306G>T non_coding_transcript_exon_variant 0.88
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.96
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.88
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.89
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 0.89
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.95
rrl 1475993 n.2336C>T non_coding_transcript_exon_variant 0.91
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.95
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.94
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.94
rrl 1476030 n.2373A>G non_coding_transcript_exon_variant 0.94
rrl 1476032 n.2375C>A non_coding_transcript_exon_variant 0.88
rrl 1476034 n.2377C>G non_coding_transcript_exon_variant 0.88
rrl 1476040 n.2383C>T non_coding_transcript_exon_variant 0.9
rrl 1476045 n.2388G>T non_coding_transcript_exon_variant 0.86
rrl 1476047 n.2390G>T non_coding_transcript_exon_variant 0.86
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.88
rrl 1476076 n.2419A>G non_coding_transcript_exon_variant 0.64
rrl 1476110 n.2453G>T non_coding_transcript_exon_variant 0.29
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.29
rrl 1476130 n.2473G>A non_coding_transcript_exon_variant 0.71
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.6
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.16
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.79
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.16
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.96
rrl 1476195 n.2538C>A non_coding_transcript_exon_variant 0.15
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.94
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.94
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.94
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.94
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.85
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.83
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.85
rrl 1476253 n.2596A>G non_coding_transcript_exon_variant 0.82
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.83
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.95
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.12
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.82
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.88
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.91
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.91
rrl 1476297 n.2640C>A non_coding_transcript_exon_variant 0.87
rrl 1476299 n.2642C>G non_coding_transcript_exon_variant 0.76
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.8
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.9
rrl 1476308 n.2651G>C non_coding_transcript_exon_variant 0.76
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.91
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.86
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.17
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.74
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.18
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.2
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.21
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.78
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.16
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.2
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.76
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.22
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.22
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.17
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.91
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.89
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.87
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.89
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.97
rrl 1476513 n.2856G>T non_coding_transcript_exon_variant 0.13
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.89
rrl 1476524 n.2867C>T non_coding_transcript_exon_variant 0.99
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.99
rrl 1476528 n.2871A>G non_coding_transcript_exon_variant 0.15
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.76
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.97
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.21
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.8
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.82
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.76
rrl 1476583 n.2926G>A non_coding_transcript_exon_variant 0.71
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.83
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.75
rrl 1476586 n.2929C>T non_coding_transcript_exon_variant 0.38
rrl 1476594 n.2937C>A non_coding_transcript_exon_variant 0.67
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.62
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.6
rrl 1476603 n.2946G>T non_coding_transcript_exon_variant 0.71
rrl 1476607 n.2950C>T non_coding_transcript_exon_variant 0.47
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.78
rrl 1476613 n.2956G>A non_coding_transcript_exon_variant 0.53
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.76
rrl 1476616 n.2959A>G non_coding_transcript_exon_variant 0.53
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.76
rrl 1476624 n.2967T>C non_coding_transcript_exon_variant 0.19
rrl 1476628 n.2971T>G non_coding_transcript_exon_variant 0.69
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.56
rrl 1476630 n.2973A>G non_coding_transcript_exon_variant 0.69
rpsA 1833949 c.408T>C synonymous_variant 0.26
rpsA 1833955 c.414G>C synonymous_variant 0.32
rpsA 1833970 c.429G>T synonymous_variant 0.28
rpsA 1833979 c.438T>C synonymous_variant 0.4
rpsA 1833991 c.450C>A synonymous_variant 0.3
rpsA 1833994 c.453G>C synonymous_variant 0.43
rpsA 1833997 c.456G>C synonymous_variant 0.28
rpsA 1834000 c.459G>C synonymous_variant 0.4
rpsA 1834012 c.471G>T synonymous_variant 0.32
rpsA 1834015 c.474G>C synonymous_variant 0.41
rpsA 1834021 c.480C>T synonymous_variant 0.14
rpsA 1834024 c.483G>C synonymous_variant 0.43
rpsA 1834025 p.Gln162Ala missense_variant 0.29
rpsA 1834033 c.492C>T synonymous_variant 0.15
rpsA 1834034 p.Ile165Val missense_variant 0.15
rpsA 1834040 p.Lys167Arg missense_variant 0.46
rpsA 1834043 p.Glu168Gln missense_variant 0.3
rpsA 1834046 p.Ile169Leu missense_variant 0.44
rpsA 1834051 c.510G>A synonymous_variant 0.29
rpsA 1834054 c.513C>T synonymous_variant 0.28
rpsA 1834060 c.519C>T synonymous_variant 0.28
rpsA 1834090 c.549G>T synonymous_variant 0.16
rpsA 1834093 c.552G>T synonymous_variant 0.19
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834261 c.720A>G synonymous_variant 0.11
rpsA 1834285 c.744G>C synonymous_variant 0.14
rpsA 1834294 c.753G>T synonymous_variant 0.15
rpsA 1834298 p.Gln253Glu missense_variant 0.15
rpsA 1834305 c.765_767delTGA disruptive_inframe_deletion 0.14
rpsA 1834310 p.Glu257Gln missense_variant 0.14
rpsA 1834312 c.771_772insCCC conservative_inframe_insertion 0.14
rpsA 1834333 p.Asp264Glu missense_variant 0.12
rpsA 1834336 c.795C>G synonymous_variant 0.12
rpsA 1834340 p.Met267Leu missense_variant 0.12
rpsA 1834348 c.807T>C synonymous_variant 0.12
rpsA 1834354 c.813G>C synonymous_variant 0.12
rpsA 1834357 c.816T>C synonymous_variant 0.12
rpsA 1834360 c.819G>C synonymous_variant 0.12
rpsA 1834361 c.820T>C synonymous_variant 0.13
rpsA 1834366 c.825A>G synonymous_variant 0.12
rpsA 1834378 c.837T>C synonymous_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102955 p.Ala30Thr missense_variant 0.18
ndh 2102976 p.Gly23Arg missense_variant 0.17
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170110 p.Phe168Tyr missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289559 c.-318T>G upstream_gene_variant 1.0
kasA 2517966 c.-149G>A upstream_gene_variant 0.13
folC 2747615 c.-17C>T upstream_gene_variant 0.12
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 3878567 c.-60C>G upstream_gene_variant 0.25
clpC1 4039694 c.1011G>C synonymous_variant 0.27
clpC1 4039714 p.Tyr331His missense_variant 0.31
clpC1 4039724 c.981A>G synonymous_variant 0.3
clpC1 4039730 c.975C>G synonymous_variant 0.29
clpC1 4039733 c.972G>C synonymous_variant 0.3
clpC1 4039739 c.966C>A synonymous_variant 0.29
clpC1 4039742 c.963C>T synonymous_variant 0.3
clpC1 4039748 c.957G>C synonymous_variant 0.33
clpC1 4039751 c.954A>G synonymous_variant 0.32
clpC1 4039757 c.948A>G synonymous_variant 0.33
clpC1 4039760 c.945T>C synonymous_variant 0.33
clpC1 4039763 c.942C>A synonymous_variant 0.33
clpC1 4039769 c.936C>G synonymous_variant 0.34
clpC1 4039773 p.Lys311Met missense_variant 0.33
clpC1 4039775 c.930G>C synonymous_variant 0.31
clpC1 4039778 c.927A>G synonymous_variant 0.33
clpC1 4039781 c.924G>C synonymous_variant 0.33
clpC1 4039787 c.918G>C synonymous_variant 0.42
clpC1 4039799 c.906C>T synonymous_variant 0.38
clpC1 4039808 c.897G>A synonymous_variant 0.4
clpC1 4039817 c.888A>T synonymous_variant 0.48
clpC1 4039820 c.885T>C synonymous_variant 0.46
clpC1 4039826 c.879C>G synonymous_variant 0.37
clpC1 4039831 c.874T>C synonymous_variant 0.42
clpC1 4039838 p.Leu289Ile missense_variant 0.3
clpC1 4039850 c.855T>C synonymous_variant 0.35
clpC1 4039865 c.840T>C synonymous_variant 0.4
clpC1 4039873 p.Thr278Ser missense_variant 0.37
clpC1 4039875 p.Asn277Arg missense_variant 0.42
clpC1 4039877 c.828C>T synonymous_variant 0.44
clpC1 4039886 c.819C>G synonymous_variant 0.49
clpC1 4039889 c.816G>C synonymous_variant 0.49
clpC1 4039898 c.807C>G synonymous_variant 0.48
clpC1 4039919 c.786C>T synonymous_variant 0.5
clpC1 4039929 c.775_776delAGinsTC synonymous_variant 0.47
clpC1 4039934 c.771G>C synonymous_variant 0.49
clpC1 4039940 c.765G>C synonymous_variant 0.47
clpC1 4039943 c.762G>C synonymous_variant 0.44
clpC1 4039946 c.759A>C synonymous_variant 0.52
clpC1 4039949 c.756G>C synonymous_variant 0.53
clpC1 4039958 c.747G>C synonymous_variant 0.55
clpC1 4039964 c.741C>G synonymous_variant 0.57
clpC1 4039967 p.Gln246His missense_variant 0.56
clpC1 4039973 c.732C>T synonymous_variant 0.55
clpC1 4039982 c.723G>C synonymous_variant 0.54
clpC1 4039991 c.714G>C synonymous_variant 0.56
clpC1 4039994 p.Glu237Asp missense_variant 0.56
clpC1 4039997 c.708C>T synonymous_variant 0.52
clpC1 4040015 c.690G>C synonymous_variant 0.51
clpC1 4040021 c.684A>C synonymous_variant 0.45
clpC1 4040024 c.681A>G synonymous_variant 0.42
clpC1 4040027 c.678C>T synonymous_variant 0.39
clpC1 4040030 c.675C>G synonymous_variant 0.4
clpC1 4040033 c.672G>C synonymous_variant 0.43
clpC1 4040042 c.663C>T synonymous_variant 0.42
clpC1 4040045 c.660C>G synonymous_variant 0.44
clpC1 4040048 c.657C>T synonymous_variant 0.45
clpC1 4040069 c.636G>C synonymous_variant 0.44
clpC1 4040087 c.618G>C synonymous_variant 0.39
clpC1 4040096 c.609G>T synonymous_variant 0.36
clpC1 4040108 c.597G>C synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 0.17
embB 4246555 c.42G>C synonymous_variant 0.17
embB 4246556 p.Ala15Pro missense_variant 0.17
embB 4246563 p.Leu17Trp missense_variant 0.2
aftB 4267647 p.Asp397Gly missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0