TB-Profiler result

Run: SRR14334195
Summary

Run ID: SRR14334195

Sample name:

Date: 03-04-2023 10:33:06

Number of reads: 1716185

Percentage reads mapped: 48.46

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 0.99
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 1.0
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 7570 p.Ala90Val missense_variant 1.0 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
gyrA 7572 p.Ser91Pro missense_variant 1.0 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
rpsL 781687 p.Lys43Arg missense_variant 0.86 streptomycin
rrs 1472644 n.799C>T non_coding_transcript_exon_variant 0.19 streptomycin
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.38 kanamycin, capreomycin, aminoglycosides, amikacin
rrs 1473329 n.1484G>T non_coding_transcript_exon_variant 0.15 kanamycin, capreomycin, aminoglycosides, amikacin
katG 2154550 c.1561delC frameshift_variant 0.15 isoniazid
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
pncA 2289207 p.Asp12Gly missense_variant 1.0 pyrazinamide
embB 4248003 p.Gln497Arg missense_variant 1.0 ethambutol
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
gyrB 5726 p.Pro163Thr missense_variant 0.2
gyrB 5819 p.Leu194Met missense_variant 0.14
gyrB 5968 c.729G>A synonymous_variant 0.4
gyrB 6051 p.Ile271Thr missense_variant 0.2
gyrB 6377 p.Val380Ile missense_variant 0.18
gyrB 6534 p.Ala432Asp missense_variant 0.22
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7426 p.Pro42Leu missense_variant 0.33
gyrA 7484 c.183T>C synonymous_variant 0.14
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7604 c.306dupC frameshift_variant 0.13
gyrA 8777 p.Asp492Glu missense_variant 0.22
gyrA 9117 p.Glu606Tyr missense_variant 0.18
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9594 p.Ala765Ser missense_variant 0.18
gyrA 9641 c.2340C>T synonymous_variant 0.17
fgd1 490949 p.Ser56Tyr missense_variant 0.2
fgd1 491094 c.312C>A synonymous_variant 0.17
fgd1 491256 p.Lys158Asn missense_variant 0.2
fgd1 491369 p.Ser196Cys missense_variant 0.67
fgd1 491664 c.882C>A synonymous_variant 0.14
fgd1 491717 p.Ala312Glu missense_variant 0.17
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575191 c.-157C>A upstream_gene_variant 0.14
mshA 575659 c.315dupC frameshift_variant 0.29
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576307 c.960C>T synonymous_variant 0.25
mshA 576315 p.Ala323Val missense_variant 0.2
mshA 576434 p.Gln363Glu missense_variant 1.0
mshA 576784 c.1437C>A synonymous_variant 0.33
ccsA 619819 c.-72G>A upstream_gene_variant 0.18
ccsA 620605 p.Val239Phe missense_variant 0.18
ccsA 620625 p.Ile245Met missense_variant 0.91
rpoB 760491 p.Thr229Ala missense_variant 0.2
rpoB 760519 p.Thr238Asn missense_variant 0.33
rpoB 760760 c.954C>T synonymous_variant 0.33
rpoB 761012 p.Asp402Glu missense_variant 0.17
rpoB 761234 c.1428G>C synonymous_variant 0.25
rpoB 761249 c.1443A>G synonymous_variant 0.4
rpoB 761255 c.1449T>G synonymous_variant 0.29
rpoB 761258 c.1452G>A synonymous_variant 0.22
rpoB 761261 c.1455G>C synonymous_variant 0.18
rpoB 761264 c.1458C>G synonymous_variant 0.18
rpoB 761273 c.1467T>C synonymous_variant 0.22
rpoB 761282 c.1476C>G synonymous_variant 0.22
rpoB 761777 p.Asp657Glu missense_variant 0.2
rpoB 762362 p.Glu852Asp missense_variant 0.18
rpoB 762815 p.Met1003Ile missense_variant 0.25
rpoC 762842 c.-528G>T upstream_gene_variant 0.25
rpoB 762951 p.Gln1049Lys missense_variant 0.22
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoB 763083 p.Arg1093Ser missense_variant 1.0
rpoC 763088 c.-282C>G upstream_gene_variant 0.25
rpoB 763250 p.Asp1148Glu missense_variant 0.13
rpoC 763772 p.Val135Leu missense_variant 0.22
rpoC 763934 p.Ala189Ser missense_variant 0.14
rpoC 764229 p.Gln287Arg missense_variant 0.29
rpoC 764359 c.990C>G synonymous_variant 0.33
rpoC 764371 c.1002G>C synonymous_variant 0.38
rpoC 764377 c.1008C>G synonymous_variant 0.25
rpoC 764380 c.1011G>C synonymous_variant 0.33
rpoC 764387 c.1018_1020delTTGinsCTC synonymous_variant 0.33
rpoC 764404 c.1035C>T synonymous_variant 0.33
rpoC 764405 c.1036_1038delAGGinsCGC synonymous_variant 0.33
rpoC 764428 c.1059G>C synonymous_variant 0.33
rpoC 764461 c.1092A>G synonymous_variant 0.4
rpoC 764485 c.1116G>C synonymous_variant 0.4
rpoC 764566 c.1197C>G synonymous_variant 0.4
rpoC 764575 c.1206T>G synonymous_variant 0.33
rpoC 764605 c.1236G>C synonymous_variant 0.21
rpoC 764611 c.1242G>T synonymous_variant 0.29
rpoC 764632 c.1263T>C synonymous_variant 0.25
rpoC 764635 c.1266C>G synonymous_variant 0.18
rpoC 764650 c.1281G>C synonymous_variant 0.31
rpoC 764665 c.1296C>G synonymous_variant 0.33
rpoC 764668 c.1299C>T synonymous_variant 0.33
rpoC 764671 c.1302G>C synonymous_variant 0.36
rpoC 764677 c.1308C>G synonymous_variant 0.18
rpoC 764695 c.1326T>C synonymous_variant 0.5
rpoC 764701 c.1332C>G synonymous_variant 0.33
rpoC 764706 p.Leu446Gln missense_variant 0.56
rpoC 764746 c.1377G>T synonymous_variant 0.33
rpoC 764749 c.1380G>C synonymous_variant 0.33
rpoC 764758 c.1389C>G synonymous_variant 0.22
rpoC 764764 c.1395T>C synonymous_variant 0.25
rpoC 764781 p.Ser471Thr missense_variant 0.17
rpoC 764828 p.Leu487Ile missense_variant 0.14
rpoC 764854 c.1485G>T synonymous_variant 0.17
rpoC 764916 p.Leu516Pro missense_variant 0.93
rpoC 765722 p.Val785Ile missense_variant 0.17
rpoC 765891 p.Arg841Leu missense_variant 0.18
rpoC 766310 p.Arg981Ser missense_variant 0.29
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775691 c.2790G>T synonymous_variant 0.14
mmpL5 775875 p.Gly869Val missense_variant 0.5
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpL5 776266 p.Lys739Glu missense_variant 0.29
mmpL5 776380 p.Phe701Leu missense_variant 0.2
mmpL5 777157 c.1324C>A synonymous_variant 0.17
mmpL5 777164 c.1317C>T synonymous_variant 0.15
mmpL5 777830 c.651G>T synonymous_variant 0.15
mmpS5 778562 p.Arg115Leu missense_variant 0.2
mmpS5 778731 p.Glu59* stop_gained 0.2
mmpL5 779223 c.-743C>A upstream_gene_variant 0.15
mmpR5 779230 p.Glu81* stop_gained 0.14
mmpR5 779264 p.Tyr92Cys missense_variant 0.18
mmpS5 779615 c.-710C>G upstream_gene_variant 0.92
mmpS5 779666 c.-761G>T upstream_gene_variant 0.18
mmpS5 779682 c.-777G>T upstream_gene_variant 0.2
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801041 p.Arg78Leu missense_variant 0.22
rplC 801103 p.Gln99Lys missense_variant 0.25
rplC 801141 p.Tyr111* stop_gained 0.22
fbiC 1302776 c.-155C>A upstream_gene_variant 0.18
fbiC 1304097 c.1167G>A synonymous_variant 0.29
Rv1258c 1406171 c.1170C>T synonymous_variant 1.0
Rv1258c 1406477 c.864C>G synonymous_variant 0.2
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1406832 p.Gly170Asp missense_variant 0.22
Rv1258c 1406848 p.Ile165Val missense_variant 0.25
Rv1258c 1406893 p.Leu150Phe missense_variant 0.17
Rv1258c 1407515 c.-175G>A upstream_gene_variant 0.18
embR 1416573 p.Pro259Thr missense_variant 0.22
atpE 1461167 c.123G>T synonymous_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.27
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.12
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.19
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.67
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.14
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.57
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.28
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.26
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.3
rrs 1472286 n.441C>G non_coding_transcript_exon_variant 0.15
rrs 1472289 n.444T>G non_coding_transcript_exon_variant 0.22
rrs 1472290 n.445C>G non_coding_transcript_exon_variant 0.22
rrs 1472297 n.453_465delGTCCGGGTTCTCT non_coding_transcript_exon_variant 0.29
rrs 1472315 n.470T>G non_coding_transcript_exon_variant 0.33
rrs 1472324 n.479G>C non_coding_transcript_exon_variant 0.21
rrs 1472325 n.480G>C non_coding_transcript_exon_variant 0.13
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.13
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.4
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.16
rrs 1472389 n.544G>A non_coding_transcript_exon_variant 0.2
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.24
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.17
rrs 1472430 n.585C>T non_coding_transcript_exon_variant 0.17
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.16
rrs 1472496 n.651T>G non_coding_transcript_exon_variant 0.13
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.16
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.16
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.2
rrs 1472674 n.829T>A non_coding_transcript_exon_variant 0.17
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.17
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.23
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 0.18
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.2
rrs 1472686 n.841G>T non_coding_transcript_exon_variant 0.2
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.2
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.27
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.15
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.19
rrs 1472715 n.870C>G non_coding_transcript_exon_variant 0.19
rrs 1472716 n.871C>A non_coding_transcript_exon_variant 0.19
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.33
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.42
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.37
rrs 1472754 n.909G>T non_coding_transcript_exon_variant 0.33
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.33
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.35
rrs 1472803 n.958T>C non_coding_transcript_exon_variant 0.19
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.15
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.16
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.15
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.25
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.26
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.24
rrs 1472996 n.1151T>C non_coding_transcript_exon_variant 0.24
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.17
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.17
rrs 1473062 n.1217T>G non_coding_transcript_exon_variant 0.17
rrs 1473065 n.1220C>A non_coding_transcript_exon_variant 0.15
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.31
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.14
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.19
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.25
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.19
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.31
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.2
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.14
rrs 1473198 n.1354delC non_coding_transcript_exon_variant 0.17
rrs 1473202 n.1357C>T non_coding_transcript_exon_variant 0.23
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.15
rrs 1473226 n.1381C>G non_coding_transcript_exon_variant 0.25
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 0.13
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.12
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.31
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.26
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.44
rrs 1473283 n.1438T>C non_coding_transcript_exon_variant 0.24
rrs 1473288 n.1443C>G non_coding_transcript_exon_variant 0.12
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.31
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.38
rrs 1473315 n.1470T>C non_coding_transcript_exon_variant 0.23
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.23
rrs 1473319 n.1474C>T non_coding_transcript_exon_variant 0.15
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.38
rrs 1473363 n.1519_1520delGC non_coding_transcript_exon_variant 0.15
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.25
rrl 1474263 n.606G>A non_coding_transcript_exon_variant 0.14
rrl 1474498 n.841G>T non_coding_transcript_exon_variant 0.18
rrl 1474505 n.848C>G non_coding_transcript_exon_variant 0.15
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.14
rrl 1474529 n.872A>C non_coding_transcript_exon_variant 0.25
rrl 1474530 n.873G>A non_coding_transcript_exon_variant 0.21
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.19
rrl 1474539 n.882C>T non_coding_transcript_exon_variant 0.18
rrl 1474540 n.883T>G non_coding_transcript_exon_variant 0.2
rrl 1474549 n.892G>T non_coding_transcript_exon_variant 0.15
rrl 1474644 n.987G>A non_coding_transcript_exon_variant 0.15
rrl 1474749 n.1092C>T non_coding_transcript_exon_variant 0.3
rrl 1474752 n.1096delA non_coding_transcript_exon_variant 0.22
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.43
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.19
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.44
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.25
rrl 1474784 n.1127C>T non_coding_transcript_exon_variant 0.17
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.42
rrl 1474806 n.1149A>C non_coding_transcript_exon_variant 0.11
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.31
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.31
rrl 1474830 n.1173A>T non_coding_transcript_exon_variant 0.21
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 0.21
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.42
rrl 1474905 n.1248T>C non_coding_transcript_exon_variant 0.45
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.37
rrl 1474932 n.1275C>T non_coding_transcript_exon_variant 0.31
rrl 1475158 n.1501C>T non_coding_transcript_exon_variant 0.14
rrl 1475645 n.1988C>A non_coding_transcript_exon_variant 0.2
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.19
rrl 1475722 n.2065G>T non_coding_transcript_exon_variant 0.21
rrl 1475753 n.2096C>T non_coding_transcript_exon_variant 0.25
rrl 1475781 n.2124T>C non_coding_transcript_exon_variant 0.27
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.24
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.32
rrl 1475869 n.2212C>A non_coding_transcript_exon_variant 0.22
rrl 1475877 n.2220C>T non_coding_transcript_exon_variant 0.21
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.27
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.32
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.2
rrl 1475892 n.2235A>C non_coding_transcript_exon_variant 0.18
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.26
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.26
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 0.24
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.25
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.25
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.23
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.26
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.39
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.45
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 0.3
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.34
rrl 1475997 n.2340A>G non_coding_transcript_exon_variant 0.14
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.12
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.12
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.13
rrl 1476253 n.2596A>G non_coding_transcript_exon_variant 0.13
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.13
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.12
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.25
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.18
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.28
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.31
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.31
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.45
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.39
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.5
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.21
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.45
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.57
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.41
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.29
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.4
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.23
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.48
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.62
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.44
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.21
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.21
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.19
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.17
rrl 1476463 n.2806C>A non_coding_transcript_exon_variant 0.16
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.54
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.43
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.62
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.18
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.14
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.15
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.21
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.21
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.21
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.14
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.21
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.15
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.44
rrl 1476566 n.2909A>G non_coding_transcript_exon_variant 0.12
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.35
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.17
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.17
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.33
rrl 1476588 n.2931A>G non_coding_transcript_exon_variant 0.21
inhA 1673524 c.-678C>T upstream_gene_variant 0.22
inhA 1674892 p.Asn231Asp missense_variant 1.0
rpsA 1833627 p.Thr29Arg missense_variant 0.15
rpsA 1833694 c.153G>C synonymous_variant 0.29
rpsA 1833700 c.159C>G synonymous_variant 0.29
rpsA 1833721 c.180A>G synonymous_variant 0.33
rpsA 1833727 c.186G>C synonymous_variant 0.29
rpsA 1834015 c.474G>C synonymous_variant 0.22
rpsA 1834040 p.Lys167Gln missense_variant 0.22
rpsA 1834135 c.594G>C synonymous_variant 0.25
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834406 p.Arg289Ser missense_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102228 p.Ala272Val missense_variant 0.33
ndh 2102593 c.450C>A synonymous_variant 0.15
ndh 2103037 c.3_5delGAG start_lost&disruptive_inframe_deletion 0.15
katG 2153993 p.Leu707Ile missense_variant 0.18
katG 2154003 p.Glu703Asp missense_variant 0.15
katG 2154057 c.2055C>A synonymous_variant 0.2
katG 2154659 p.Gly485Ser missense_variant 0.33
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155396 p.Pro239Leu missense_variant 0.2
katG 2156065 p.Ala16Asp missense_variant 0.18
katG 2156553 c.-442G>C upstream_gene_variant 0.12
PPE35 2167919 c.2694T>C synonymous_variant 0.22
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167955 c.2658A>C synonymous_variant 0.18
PPE35 2168208 p.Asp802Gly missense_variant 0.12
PPE35 2169272 c.1341C>G synonymous_variant 0.12
PPE35 2169281 c.1332T>G synonymous_variant 0.12
PPE35 2170280 c.333C>G synonymous_variant 0.18
PPE35 2170406 c.207A>G synonymous_variant 0.33
Rv1979c 2222357 p.Thr270Ala missense_variant 0.29
Rv1979c 2222913 c.252C>A synonymous_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288745 p.Asp166Gly missense_variant 0.17
pncA 2289368 c.-127G>T upstream_gene_variant 0.14
kasA 2518016 c.-99A>G upstream_gene_variant 0.12
kasA 2518264 c.150C>T synonymous_variant 0.2
kasA 2518323 p.Ser70Asn missense_variant 0.14
kasA 2518433 p.Arg107Trp missense_variant 0.22
kasA 2518683 p.Ala190Asp missense_variant 0.2
kasA 2519053 c.939G>C synonymous_variant 0.12
eis 2714138 p.Ala399Pro missense_variant 0.17
eis 2714377 p.Thr319Lys missense_variant 0.15
ahpC 2726152 c.-41C>A upstream_gene_variant 0.14
folC 2747136 p.Leu155Ile missense_variant 0.22
pepQ 2859519 c.900G>A synonymous_variant 0.2
pepQ 2860470 c.-52G>A upstream_gene_variant 0.2
ribD 2986733 c.-106C>A upstream_gene_variant 0.2
ribD 2986852 p.Gly5Val missense_variant 0.15
ribD 2987361 p.Glu175* stop_gained 0.18
Rv2752c 3064740 c.1452C>A synonymous_variant 0.18
Rv2752c 3065169 c.1023C>T synonymous_variant 0.29
Rv2752c 3065633 p.Gly187Arg missense_variant 0.33
thyX 3067716 p.Ser77Ile missense_variant 0.17
thyA 3073905 c.567C>T synonymous_variant 0.18
thyA 3074096 c.376C>A synonymous_variant 0.22
thyA 3074116 p.Leu119Pro missense_variant 0.17
thyA 3074150 p.His108Asn missense_variant 0.14
thyA 3074412 p.Asp20Glu missense_variant 0.22
thyA 3074446 p.Arg9His missense_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086899 p.Thr27Asn missense_variant 0.14
ald 3086950 p.Ala44Gly missense_variant 0.18
ald 3087294 p.Leu159Met missense_variant 0.15
ald 3087419 p.Asn200Lys missense_variant 0.18
Rv3083 3448361 c.-143G>T upstream_gene_variant 0.17
Rv3083 3449835 c.1332G>T synonymous_variant 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474176 p.His57Pro missense_variant 0.17
fprA 3474428 p.Val141Glu missense_variant 0.15
fprA 3474585 p.Glu193Asp missense_variant 0.15
whiB7 3568614 c.66C>A synonymous_variant 0.18
whiB7 3568622 p.Cys20Arg missense_variant 0.15
Rv3236c 3612388 c.729T>C synonymous_variant 0.5
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3641545 p.Pro4Leu missense_variant 0.18
alr 3840248 c.1173C>A synonymous_variant 0.15
alr 3840555 p.Ala289Val missense_variant 0.15
alr 3840913 p.Ala170Thr missense_variant 0.13
alr 3841546 c.-126C>A upstream_gene_variant 0.28
rpoA 3877471 p.Gln346Arg missense_variant 0.17
rpoA 3877591 p.Leu306Pro missense_variant 0.14
rpoA 3877839 c.669G>T synonymous_variant 0.14
rpoA 3877848 c.660C>T synonymous_variant 0.14
rpoA 3877875 c.633T>G synonymous_variant 0.18
rpoA 3877881 c.627G>T synonymous_variant 0.18
rpoA 3877884 c.624G>C synonymous_variant 0.18
rpoA 3877893 c.615C>T synonymous_variant 0.22
rpoA 3877899 p.Ser203Thr missense_variant 0.22
rpoA 3877905 c.603A>G synonymous_variant 0.22
rpoA 3877908 c.600T>C synonymous_variant 0.22
rpoA 3877926 c.582G>C synonymous_variant 0.29
rpoA 3877929 c.579C>T synonymous_variant 0.29
rpoA 3877962 c.546G>T synonymous_variant 0.2
ddn 3986654 c.-190C>A upstream_gene_variant 0.18
ddn 3987026 c.183C>A synonymous_variant 0.17
clpC1 4038286 p.Trp807Arg missense_variant 0.33
clpC1 4038605 p.Glu700Asp missense_variant 0.22
clpC1 4038882 p.Gly608Asp missense_variant 0.2
clpC1 4039090 c.1615C>T synonymous_variant 0.29
clpC1 4039259 p.Glu482Asp missense_variant 0.33
clpC1 4039447 p.Asp420Asn missense_variant 0.29
clpC1 4039691 c.1014G>C synonymous_variant 0.18
clpC1 4039850 c.855T>C synonymous_variant 0.4
clpC1 4039865 c.840T>C synonymous_variant 0.13
clpC1 4039874 p.Asn277Lys missense_variant 0.12
clpC1 4039888 p.Leu273Ile missense_variant 0.13
clpC1 4039898 c.807C>G synonymous_variant 0.15
clpC1 4039904 c.801A>G synonymous_variant 0.18
clpC1 4039949 c.756G>T synonymous_variant 0.29
clpC1 4039975 p.Asp244Asn missense_variant 0.22
embC 4241072 p.Leu404Met missense_variant 0.22
embC 4241439 p.Ser526Asn missense_variant 0.22
embC 4241712 p.Arg617Leu missense_variant 0.25
embC 4241733 p.Ala624Val missense_variant 0.18
embC 4241864 c.2002C>T synonymous_variant 0.25
embA 4242307 c.-926C>A upstream_gene_variant 0.4
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242826 c.-407G>T upstream_gene_variant 0.29
embC 4242900 p.Pro1013Arg missense_variant 0.14
embC 4242967 p.Ile1035Met missense_variant 0.13
embA 4243318 p.Gly29Asp missense_variant 0.29
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244850 p.Arg540Trp missense_variant 0.25
embA 4244891 c.1659C>T synonymous_variant 0.25
embA 4245757 p.Ser842Ile missense_variant 0.22
embA 4246176 p.Ala982Thr missense_variant 0.29
embB 4246544 p.Thr11Pro missense_variant 0.62
embB 4246548 p.Pro12Gln missense_variant 0.5
embB 4246555 c.42G>C synonymous_variant 0.5
embB 4246556 p.Ala15Pro missense_variant 0.5
embB 4246718 p.Ala69Pro missense_variant 0.25
embB 4249676 p.Arg1055Gly missense_variant 0.25
embB 4249757 p.Thr1082Ala missense_variant 1.0
aftB 4267002 p.Arg612Pro missense_variant 0.22
aftB 4267025 c.1812C>T synonymous_variant 0.14
aftB 4267031 c.1806C>A synonymous_variant 0.14
aftB 4267370 c.1467C>T synonymous_variant 0.25
aftB 4267490 c.1347G>A synonymous_variant 0.15
aftB 4267647 p.Asp397Gly missense_variant 1.0
ubiA 4269116 p.Arg240Cys missense_variant 1.0
ubiA 4269437 p.Ala133Ser missense_variant 0.14
ethA 4326405 p.Asp357Tyr missense_variant 1.0
ethA 4327353 p.Met41Val missense_variant 0.14
ethA 4327430 p.Ser15Tyr missense_variant 0.18
ethA 4327701 c.-228G>T upstream_gene_variant 0.18
ethR 4327933 p.Ala129Thr missense_variant 0.25
whiB6 4338381 p.Asp47Glu missense_variant 0.5
whiB6 4338399 p.Trp41Cys missense_variant 0.5
whiB6 4338436 p.Val29Pro missense_variant 0.33
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
gid 4408085 p.Glu40* stop_gained 0.17