TB-Profiler result

Run: SRR3601585
Summary

Run ID: SRR3601585

Sample name:

Date: 04-04-2023 05:20:33

Number of reads: 1039512

Percentage reads mapped: 39.78

Strain: lineage2.2

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
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.Asp94Ala missense_variant 1.0 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
rpoB 761127 p.Ser441Ala missense_variant 0.47 rifampicin
rpoB 761140 p.His445Arg missense_variant 0.58 rifampicin
rpsL 781687 p.Lys43Arg missense_variant 0.9 streptomycin
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.88 kanamycin, capreomycin, aminoglycosides, amikacin
rrs 1473329 n.1484G>T non_coding_transcript_exon_variant 0.78 kanamycin, capreomycin, aminoglycosides, amikacin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
pncA 2288844 p.Ile133Thr missense_variant 1.0 pyrazinamide
folC 2747151 p.Ser150Gly missense_variant 1.0 para-aminosalicylic_acid
embB 4247431 p.Met306Ile missense_variant 1.0 ethambutol
embB 4247730 p.Gly406Asp missense_variant 1.0 ethambutol
ethA 4326008 c.1465delG frameshift_variant 0.15 ethionamide, ethionamide
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 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 760916 c.1110C>T synonymous_variant 0.33
rpoB 760920 p.Leu372Ile missense_variant 0.29
rpoB 760925 c.1119T>C synonymous_variant 0.29
rpoB 760926 p.Thr374Ala missense_variant 0.25
rpoB 760946 c.1140A>G synonymous_variant 0.42
rpoB 760953 p.Ile383Val missense_variant 0.42
rpoB 760955 c.1151_1152insCACG frameshift_variant 0.45
rpoB 760961 c.1156_1159delGGCA frameshift_variant 0.56
rpoB 760973 c.1167G>C synonymous_variant 0.42
rpoB 760982 c.1176G>C synonymous_variant 0.56
rpoB 760985 c.1179G>C synonymous_variant 0.62
rpoB 760988 c.1182C>G synonymous_variant 0.56
rpoB 760991 c.1185G>C synonymous_variant 0.56
rpoB 760997 c.1191G>C synonymous_variant 0.56
rpoB 761003 c.1197C>G synonymous_variant 0.56
rpoB 761006 c.1200C>G synonymous_variant 0.42
rpoB 761009 c.1203G>A synonymous_variant 0.42
rpoB 761013 p.Val403Ile missense_variant 0.42
rpoB 761027 c.1221A>G synonymous_variant 0.46
rpoB 761036 c.1230G>C synonymous_variant 0.43
rpoB 761037 c.1231T>C synonymous_variant 0.43
rpoB 761046 p.Ile414Val missense_variant 0.43
rpoB 761051 c.1245G>C synonymous_variant 0.43
rpoB 761054 c.1248G>C synonymous_variant 0.47
rpoB 761057 c.1251G>C synonymous_variant 0.5
rpoB 761084 c.1278C>A synonymous_variant 0.47
rpoB 761088 c.1282_1284delAGCinsTCG synonymous_variant 0.44
rpoB 761097 c.1291_1293delAGCinsTCG synonymous_variant 0.5
rpoB 761102 c.1296A>G synonymous_variant 0.47
rpoB 761126 c.1320G>C synonymous_variant 0.47
rpoB 761132 c.1326G>T synonymous_variant 0.44
rpoB 761147 c.1341C>T synonymous_variant 0.33
rpoB 761150 c.1344A>C synonymous_variant 0.33
rpoB 761153 c.1347G>C synonymous_variant 0.33
rpoB 761162 c.1356G>C synonymous_variant 0.36
rpoB 761165 c.1359G>C synonymous_variant 0.38
rpoB 761171 c.1365C>T synonymous_variant 0.36
rpoB 761177 c.1371G>C synonymous_variant 0.36
rpoB 761180 c.1374A>G synonymous_variant 0.31
rpoB 761189 c.1383T>C synonymous_variant 0.33
rpoB 761195 c.1389G>C synonymous_variant 0.33
rpoB 761196 p.Leu464Val missense_variant 0.27
rpoB 761204 c.1398C>T synonymous_variant 0.3
rpoB 761207 c.1401C>T synonymous_variant 0.36
rpoB 761213 c.1407G>C synonymous_variant 0.36
rpoB 761219 c.1413G>C synonymous_variant 0.36
rpoB 761234 c.1428G>C synonymous_variant 0.33
rpoB 761249 c.1443A>G synonymous_variant 0.3
rpoB 761255 c.1449T>G synonymous_variant 0.33
rpoB 761258 c.1452G>A synonymous_variant 0.25
rpoB 761261 c.1455G>C synonymous_variant 0.25
rpoB 761264 c.1458C>G synonymous_variant 0.25
rpoB 761273 c.1467T>C synonymous_variant 0.29
rpoB 761282 c.1476C>T synonymous_variant 0.22
rpoB 761283 p.Ser493Ala missense_variant 0.22
rpoB 761288 c.1482G>C synonymous_variant 0.2
rpoB 761289 p.Ser495Ala missense_variant 0.2
rpoB 761292 p.Val496Ser missense_variant 0.18
rpoB 761296 p.Tyr497Phe missense_variant 0.18
rpoB 761303 c.1497G>C synonymous_variant 0.22
rpoB 761304 p.Val500Ile missense_variant 0.22
rpoB 761310 p.Pro502Ser missense_variant 0.22
rpoB 761318 c.1512G>C synonymous_variant 0.2
rpoB 761327 c.1521A>G synonymous_variant 0.22
rpoB 761330 c.1524G>C synonymous_variant 0.25
rpoB 762879 p.Met1025Leu missense_variant 0.38
rpoC 762896 c.-474G>C upstream_gene_variant 0.43
rpoC 762899 c.-471G>C upstream_gene_variant 0.43
rpoC 762917 c.-453C>G upstream_gene_variant 0.44
rpoC 762920 c.-450C>T upstream_gene_variant 0.44
rpoC 762923 c.-447C>G upstream_gene_variant 0.46
rpoC 762926 c.-444C>G upstream_gene_variant 0.44
rpoC 762929 c.-441G>C upstream_gene_variant 0.5
rpoC 762947 c.-423C>G upstream_gene_variant 0.47
rpoC 762962 c.-408C>T upstream_gene_variant 0.5
rpoC 762983 c.-387C>T upstream_gene_variant 0.58
rpoC 762989 c.-381G>C upstream_gene_variant 0.6
rpoC 762995 c.-375G>T upstream_gene_variant 0.55
rpoB 763005 p.Cys1067Val missense_variant 0.53
rpoC 763013 c.-357C>A upstream_gene_variant 0.5
rpoB 763014 p.Met1070Leu missense_variant 0.5
rpoB 763017 p.Gln1071Glu missense_variant 0.5
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoB 763038 p.Thr1078Ala missense_variant 0.52
rpoC 763053 c.-317T>C upstream_gene_variant 0.55
rpoC 763058 c.-312C>G upstream_gene_variant 0.55
rpoB 763059 p.Ile1085Val missense_variant 0.57
rpoC 763070 c.-300T>C upstream_gene_variant 0.53
rpoB 763075 p.Thr1090Ile missense_variant 0.55
rpoB 763077 p.Val1091Leu missense_variant 0.57
rpoC 763094 c.-276G>C upstream_gene_variant 0.55
rpoC 763115 c.-255T>C upstream_gene_variant 0.52
rpoC 763127 c.-243G>C upstream_gene_variant 0.48
rpoC 763133 c.-237G>C upstream_gene_variant 0.45
rpoC 763148 c.-222G>C upstream_gene_variant 0.35
rpoC 763160 c.-210G>C upstream_gene_variant 0.21
rpoB 763161 p.Leu1119Ile missense_variant 0.21
rpoC 763169 c.-201A>G upstream_gene_variant 0.21
rpoB 763170 p.Leu1122Met missense_variant 0.21
rpoC 763456 c.87A>G synonymous_variant 0.28
rpoC 763462 c.93G>C synonymous_variant 0.32
rpoC 763465 c.96G>A synonymous_variant 0.35
rpoC 763483 c.114G>C synonymous_variant 0.37
rpoC 763486 c.117T>G synonymous_variant 0.38
rpoC 763492 c.123G>C synonymous_variant 0.38
rpoC 763504 c.135C>T synonymous_variant 0.36
rpoC 763511 p.Cys48Gly missense_variant 0.33
rpoC 763517 p.Lys50Gln missense_variant 0.33
rpoC 763528 c.159G>C synonymous_variant 0.32
rpoC 763531 c.162G>C synonymous_variant 0.32
rpoC 763532 p.Thr55Ser missense_variant 0.32
rpoC 763546 c.177A>G synonymous_variant 0.32
rpoC 763550 p.Tyr61Ala missense_variant 0.35
rpoC 763555 c.186C>T synonymous_variant 0.35
rpoC 763570 c.201G>C synonymous_variant 0.45
rpoC 763589 p.Ile74Val missense_variant 0.44
rpoC 763609 c.240C>G synonymous_variant 0.48
rpoC 763614 c.246_251delGACCCG disruptive_inframe_deletion 0.5
rpoC 763622 p.Ala85Thr missense_variant 0.5
rpoC 763627 c.258_259insTCCTCC conservative_inframe_insertion 0.5
rpoC 763630 c.261G>C synonymous_variant 0.52
rpoC 763633 c.264T>C synonymous_variant 0.52
rpoC 763636 c.267T>C synonymous_variant 0.57
rpoC 763642 c.273G>C synonymous_variant 0.57
rpoC 763660 c.291T>C synonymous_variant 0.55
rpoC 763696 c.327T>C synonymous_variant 0.53
rpoC 763699 c.330G>T synonymous_variant 0.53
rpoC 763708 c.339G>C synonymous_variant 0.44
rpoC 763709 c.340C>T synonymous_variant 0.4
rpoC 763714 c.345G>C synonymous_variant 0.33
rpoC 763717 c.348T>C synonymous_variant 0.33
rpoC 763723 c.354G>C synonymous_variant 0.33
rpoC 763727 p.Leu120Met missense_variant 0.33
rpoC 763732 c.363C>A synonymous_variant 0.33
rpoC 763744 c.375G>C synonymous_variant 0.36
rpoC 763751 p.Ile128Val missense_variant 0.27
rpoC 764387 c.1018T>C synonymous_variant 0.14
rpoC 764405 c.1036A>C synonymous_variant 0.15
rpoC 764428 c.1059G>C synonymous_variant 0.15
rpoC 764435 c.1066A>C synonymous_variant 0.16
rpoC 764449 c.1080G>C synonymous_variant 0.16
rpoC 764455 c.1086G>C synonymous_variant 0.18
rpoC 764458 c.1089G>C synonymous_variant 0.17
rpoC 764461 c.1092A>G synonymous_variant 0.19
rpoC 764479 c.1110G>A synonymous_variant 0.33
rpoC 764494 c.1125G>A synonymous_variant 0.31
rpoC 764497 c.1128A>G synonymous_variant 0.31
rpoC 764498 p.Ser377Ala missense_variant 0.31
rpoC 764503 c.1134G>C synonymous_variant 0.4
rpoC 764521 c.1152T>C synonymous_variant 0.34
rpoC 764545 c.1176C>G synonymous_variant 0.28
rpoC 764548 c.1179G>C synonymous_variant 0.35
rpoC 764549 p.Pro394Thr missense_variant 0.29
rpoC 764560 c.1191T>G synonymous_variant 0.3
rpoC 764561 p.Pro398Ala missense_variant 0.3
rpoC 764566 c.1197C>G synonymous_variant 0.39
rpoC 764572 c.1203G>C synonymous_variant 0.31
rpoC 764575 c.1206T>G synonymous_variant 0.4
rpoC 764576 c.1207_1208delTCinsAG synonymous_variant 0.34
rpoC 764581 c.1212T>C synonymous_variant 0.4
rpoC 764582 p.Leu405Met missense_variant 0.41
rpoC 764593 c.1224C>A synonymous_variant 0.36
rpoC 764602 c.1233C>T synonymous_variant 0.35
rpoC 764611 c.1242G>C synonymous_variant 0.39
rpoC 764623 c.1254C>G synonymous_variant 0.14
rpoC 764632 c.1263T>C synonymous_variant 0.46
rpoC 764635 c.1266C>G synonymous_variant 0.33
rpoC 764650 c.1281G>T synonymous_variant 0.44
rpoC 764662 c.1293G>C synonymous_variant 0.41
rpoC 764665 c.1296C>G synonymous_variant 0.41
rpoC 764668 c.1299C>T synonymous_variant 0.33
rpoC 764677 c.1308C>G synonymous_variant 0.39
rpoC 764683 c.1314G>C synonymous_variant 0.3
rpoC 764692 c.1323C>T synonymous_variant 0.26
rpoC 764706 p.Leu446Gln missense_variant 0.32
rpoC 764713 c.1344G>T synonymous_variant 0.22
rpoC 764716 c.1347G>C synonymous_variant 0.17
rpoC 765050 p.Ser561Pro missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpL5 778345 p.Leu46Ile missense_variant 0.2
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781754 c.195G>C synonymous_variant 0.31
rpsL 781760 c.201T>C synonymous_variant 0.38
rpsL 781766 c.207C>T synonymous_variant 0.41
rpsL 781802 c.243G>C synonymous_variant 0.55
rpsL 781805 c.246G>C synonymous_variant 0.55
rpsL 781814 c.255C>T synonymous_variant 0.5
rpsL 781817 c.258G>T synonymous_variant 0.48
rpsL 781829 c.270G>C synonymous_variant 0.43
rpsL 781832 c.273T>C synonymous_variant 0.43
rpsL 781851 p.Ile98Val missense_variant 0.33
rpsL 781859 c.300T>C synonymous_variant 0.32
rpsL 781860 p.Ser101Ala missense_variant 0.32
rpsL 781865 c.306G>C synonymous_variant 0.29
rpsL 781868 c.309T>C synonymous_variant 0.29
rpsL 781876 p.Gly106Ala missense_variant 0.26
rpsL 781892 c.333A>G synonymous_variant 0.25
rpsL 781898 c.339A>C synonymous_variant 0.25
rpsL 781901 c.342C>T synonymous_variant 0.25
rpsL 781907 c.348T>C synonymous_variant 0.26
rpsL 781916 c.357T>G synonymous_variant 0.26
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472078 n.233C>T non_coding_transcript_exon_variant 0.18
rrs 1472094 n.249T>A non_coding_transcript_exon_variant 0.28
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.29
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.29
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.29
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.29
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.33
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.43
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.46
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.52
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.66
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.73
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.76
rrs 1472284 n.439C>T non_coding_transcript_exon_variant 0.45
rrs 1472286 n.441C>G non_coding_transcript_exon_variant 0.43
rrs 1472289 n.444T>G non_coding_transcript_exon_variant 0.45
rrs 1472290 n.445C>G non_coding_transcript_exon_variant 0.45
rrs 1472293 n.448C>A non_coding_transcript_exon_variant 0.45
rrs 1472297 n.453_465delGTCCGGGTTCTCT non_coding_transcript_exon_variant 0.45
rrs 1472315 n.470T>G non_coding_transcript_exon_variant 0.43
rrs 1472324 n.479G>C non_coding_transcript_exon_variant 0.45
rrs 1472325 n.480G>C non_coding_transcript_exon_variant 0.45
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.36
rrs 1472333 n.488G>A non_coding_transcript_exon_variant 0.37
rrs 1472338 n.493A>G non_coding_transcript_exon_variant 0.5
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.69
rrs 1472349 n.504A>T non_coding_transcript_exon_variant 0.18
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.79
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.79
rrs 1472389 n.544G>A non_coding_transcript_exon_variant 0.73
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.74
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.78
rrs 1472434 n.589_590insC non_coding_transcript_exon_variant 0.57
rrs 1472437 n.592T>C non_coding_transcript_exon_variant 0.57
rrs 1472438 n.594delC non_coding_transcript_exon_variant 0.57
rrs 1472446 n.601T>A non_coding_transcript_exon_variant 0.57
rrs 1472448 n.603T>C non_coding_transcript_exon_variant 0.57
rrs 1472450 n.605A>G non_coding_transcript_exon_variant 0.57
rrs 1472451 n.606C>A non_coding_transcript_exon_variant 0.57
rrs 1472456 n.611T>C non_coding_transcript_exon_variant 0.53
rrs 1472460 n.615T>C non_coding_transcript_exon_variant 0.53
rrs 1472461 n.616G>T non_coding_transcript_exon_variant 0.53
rrs 1472462 n.617T>C non_coding_transcript_exon_variant 0.53
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.53
rrs 1472467 n.622G>C non_coding_transcript_exon_variant 0.53
rrs 1472471 n.626G>A non_coding_transcript_exon_variant 0.5
rrs 1472473 n.628G>T non_coding_transcript_exon_variant 0.44
rrs 1472474 n.629C>G non_coding_transcript_exon_variant 0.44
rrs 1472476 n.631A>G non_coding_transcript_exon_variant 0.44
rrs 1472485 n.640G>A non_coding_transcript_exon_variant 0.57
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.64
rrs 1472496 n.651T>G non_coding_transcript_exon_variant 0.64
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.64
rrs 1472507 n.662C>T non_coding_transcript_exon_variant 0.7
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.8
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.76
rrs 1472571 n.726G>A non_coding_transcript_exon_variant 0.77
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.79
rrs 1472606 n.761C>G non_coding_transcript_exon_variant 0.78
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.83
rrs 1472623 n.778A>C non_coding_transcript_exon_variant 0.74
rrs 1472645 n.800G>C non_coding_transcript_exon_variant 0.78
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.84
rrs 1472660 n.815T>A non_coding_transcript_exon_variant 0.82
rrs 1472666 n.821G>T non_coding_transcript_exon_variant 0.84
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.83
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.83
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.81
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 0.81
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.83
rrs 1472686 n.841G>A non_coding_transcript_exon_variant 0.81
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.84
rrs 1472694 n.849C>A non_coding_transcript_exon_variant 0.84
rrs 1472697 n.852T>A non_coding_transcript_exon_variant 0.84
rrs 1472714 n.869A>T non_coding_transcript_exon_variant 0.75
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.16
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.17
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.17
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.58
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.2
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.57
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.23
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.24
rrs 1472812 n.967A>C non_coding_transcript_exon_variant 0.23
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.17
rrs 1472887 n.1042G>C non_coding_transcript_exon_variant 0.13
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.63
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.82
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.81
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.81
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.81
rrs 1472982 n.1137G>A non_coding_transcript_exon_variant 0.86
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.86
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.89
rrs 1472993 n.1148G>T non_coding_transcript_exon_variant 0.9
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.7
rrs 1473038 n.1193A>C non_coding_transcript_exon_variant 0.25
rrs 1473044 n.1199C>G non_coding_transcript_exon_variant 0.23
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.94
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.94
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.95
rrs 1473097 n.1252G>A non_coding_transcript_exon_variant 0.97
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.97
rrs 1473105 n.1260G>A 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 0.97
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.95
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.96
rrs 1473134 n.1289T>C non_coding_transcript_exon_variant 0.96
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.94
rrs 1473147 n.1302G>A non_coding_transcript_exon_variant 0.94
rrs 1473164 n.1319C>T non_coding_transcript_exon_variant 0.95
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.95
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.92
rrs 1473269 n.1424C>T non_coding_transcript_exon_variant 0.88
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.87
rrs 1473283 n.1438T>C non_coding_transcript_exon_variant 0.87
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.85
rrs 1473291 n.1446_1447insT non_coding_transcript_exon_variant 0.85
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.86
rrs 1473319 n.1474C>T non_coding_transcript_exon_variant 0.83
rrs 1473320 n.1475G>A non_coding_transcript_exon_variant 0.83
rrs 1473324 n.1479G>A non_coding_transcript_exon_variant 0.83
rrl 1473698 n.41G>T non_coding_transcript_exon_variant 0.2
rrl 1473699 n.42A>G non_coding_transcript_exon_variant 0.2
rrl 1473707 n.50T>A non_coding_transcript_exon_variant 0.2
rrl 1473717 n.60G>A non_coding_transcript_exon_variant 0.19
rrl 1473719 n.62G>C non_coding_transcript_exon_variant 0.19
rrl 1473721 n.64G>A non_coding_transcript_exon_variant 0.19
rrl 1473722 n.65G>T non_coding_transcript_exon_variant 0.19
rrl 1473731 n.74T>A non_coding_transcript_exon_variant 0.19
rrl 1473740 n.83G>T non_coding_transcript_exon_variant 0.18
rrl 1473746 n.89T>A non_coding_transcript_exon_variant 0.17
rrl 1473747 n.90C>T non_coding_transcript_exon_variant 0.17
rrl 1473750 n.93C>G non_coding_transcript_exon_variant 0.15
rrl 1473752 n.95G>A non_coding_transcript_exon_variant 0.15
rrl 1473756 n.99G>T non_coding_transcript_exon_variant 0.15
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 0.15
rrl 1473844 n.187C>T non_coding_transcript_exon_variant 0.3
rrl 1473870 n.213G>A non_coding_transcript_exon_variant 0.38
rrl 1473871 n.214T>C non_coding_transcript_exon_variant 0.38
rrl 1473876 n.219G>A non_coding_transcript_exon_variant 0.39
rrl 1473887 n.230T>C non_coding_transcript_exon_variant 0.37
rrl 1473888 n.231T>A non_coding_transcript_exon_variant 0.38
rrl 1473898 n.241C>T non_coding_transcript_exon_variant 0.36
rrl 1474177 n.520T>C non_coding_transcript_exon_variant 0.18
rrl 1474183 n.526T>C non_coding_transcript_exon_variant 0.2
rrl 1474184 n.527C>A non_coding_transcript_exon_variant 0.2
rrl 1474201 n.544T>C non_coding_transcript_exon_variant 0.36
rrl 1474202 n.545T>A non_coding_transcript_exon_variant 0.36
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.5
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.55
rrl 1474265 n.608G>T non_coding_transcript_exon_variant 0.33
rrl 1474269 n.612C>T non_coding_transcript_exon_variant 0.33
rrl 1474275 n.618T>A non_coding_transcript_exon_variant 0.33
rrl 1474280 n.623C>T non_coding_transcript_exon_variant 0.29
rrl 1474281 n.624A>G non_coding_transcript_exon_variant 0.29
rrl 1474286 n.629C>A non_coding_transcript_exon_variant 0.29
rrl 1474287 n.630T>G non_coding_transcript_exon_variant 0.29
rrl 1474292 n.635T>A non_coding_transcript_exon_variant 0.29
rrl 1474293 n.636T>G non_coding_transcript_exon_variant 0.29
rrl 1474295 n.638C>A non_coding_transcript_exon_variant 0.29
rrl 1474296 n.639T>G non_coding_transcript_exon_variant 0.29
rrl 1474298 n.642_654delCCGGAGGAGGGTG non_coding_transcript_exon_variant 0.31
rrl 1474316 n.659T>C non_coding_transcript_exon_variant 0.27
rrl 1474317 n.660G>A non_coding_transcript_exon_variant 0.31
rrl 1474348 n.691C>T non_coding_transcript_exon_variant 0.62
rrl 1474351 n.694G>C non_coding_transcript_exon_variant 0.64
rrl 1474354 n.697C>T non_coding_transcript_exon_variant 0.66
rrl 1474359 n.702C>G non_coding_transcript_exon_variant 0.69
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.69
rrl 1474374 n.717T>A non_coding_transcript_exon_variant 0.75
rrl 1474376 n.719T>A non_coding_transcript_exon_variant 0.76
rrl 1474387 n.730C>T non_coding_transcript_exon_variant 0.76
rrl 1474414 n.757C>T non_coding_transcript_exon_variant 0.35
rrl 1474415 n.758C>T non_coding_transcript_exon_variant 0.35
rrl 1474416 n.761_784delCACGCGCATACGCGCGTGTGAATA non_coding_transcript_exon_variant 0.35
rrl 1474444 n.787G>C non_coding_transcript_exon_variant 0.33
rrl 1474447 n.790G>A non_coding_transcript_exon_variant 0.33
rrl 1474451 n.794T>C non_coding_transcript_exon_variant 0.43
rrl 1474454 n.797G>A non_coding_transcript_exon_variant 0.43
rrl 1474466 n.809G>A non_coding_transcript_exon_variant 0.62
rrl 1474476 n.819C>T non_coding_transcript_exon_variant 0.66
rrl 1474488 n.831G>C non_coding_transcript_exon_variant 0.7
rrl 1474496 n.839C>A non_coding_transcript_exon_variant 0.76
rrl 1474497 n.840G>C non_coding_transcript_exon_variant 0.77
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 0.8
rrl 1474507 n.850G>T non_coding_transcript_exon_variant 0.8
rrl 1474516 n.859C>G non_coding_transcript_exon_variant 0.81
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.82
rrl 1474558 n.901G>A non_coding_transcript_exon_variant 0.83
rrl 1474583 n.926C>T non_coding_transcript_exon_variant 0.82
rrl 1474601 n.944C>T non_coding_transcript_exon_variant 0.78
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.77
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.77
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.77
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.77
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 0.77
rrl 1474676 n.1019T>A non_coding_transcript_exon_variant 0.79
rrl 1474709 n.1053_1056delTGGT non_coding_transcript_exon_variant 0.62
rrl 1474717 n.1060_1061insGTGAG non_coding_transcript_exon_variant 0.57
rrl 1474722 n.1065T>C non_coding_transcript_exon_variant 0.57
rrl 1474723 n.1066G>A non_coding_transcript_exon_variant 0.57
rrl 1474734 n.1077G>T non_coding_transcript_exon_variant 0.61
rrl 1474736 n.1079C>T non_coding_transcript_exon_variant 0.61
rrl 1474749 n.1092C>T non_coding_transcript_exon_variant 0.66
rrl 1474751 n.1094G>A non_coding_transcript_exon_variant 0.66
rrl 1474753 n.1097delC non_coding_transcript_exon_variant 0.66
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.66
rrl 1474770 n.1113G>A non_coding_transcript_exon_variant 0.66
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.66
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.68
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.68
rrl 1474783 n.1126G>A non_coding_transcript_exon_variant 0.68
rrl 1474790 n.1133C>T non_coding_transcript_exon_variant 0.69
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.72
rrl 1474800 n.1143T>C non_coding_transcript_exon_variant 0.72
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.76
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.75
rrl 1474830 n.1173A>C non_coding_transcript_exon_variant 0.72
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 0.72
rrl 1474832 n.1175A>T non_coding_transcript_exon_variant 0.72
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.75
rrl 1474905 n.1248T>C non_coding_transcript_exon_variant 0.73
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.67
rrl 1474920 n.1263G>A non_coding_transcript_exon_variant 0.64
rrl 1474935 n.1278A>G non_coding_transcript_exon_variant 0.5
rrl 1474938 n.1281G>A non_coding_transcript_exon_variant 0.5
rrl 1475060 n.1404delC non_coding_transcript_exon_variant 0.4
rrl 1475065 n.1408G>A non_coding_transcript_exon_variant 0.4
rrl 1475067 n.1410A>G non_coding_transcript_exon_variant 0.4
rrl 1475068 n.1411A>T non_coding_transcript_exon_variant 0.4
rrl 1475073 n.1416G>T non_coding_transcript_exon_variant 0.33
rrl 1475076 n.1419C>A non_coding_transcript_exon_variant 0.29
rrl 1475078 n.1421T>A non_coding_transcript_exon_variant 0.29
rrl 1475079 n.1422T>C non_coding_transcript_exon_variant 0.29
rrl 1475081 n.1424C>T non_coding_transcript_exon_variant 0.25
rrl 1475084 n.1427G>T non_coding_transcript_exon_variant 0.25
rrl 1475104 n.1447T>A non_coding_transcript_exon_variant 0.22
rrl 1475108 n.1451C>T non_coding_transcript_exon_variant 0.22
rrl 1475111 n.1454G>A non_coding_transcript_exon_variant 0.22
rrl 1475114 n.1457C>T non_coding_transcript_exon_variant 0.2
rrl 1475116 n.1459G>A non_coding_transcript_exon_variant 0.2
rrl 1475119 n.1462C>T non_coding_transcript_exon_variant 0.2
rrl 1475120 n.1463G>T non_coding_transcript_exon_variant 0.2
rrl 1475124 n.1467A>T non_coding_transcript_exon_variant 0.2
rrl 1475129 n.1472G>A non_coding_transcript_exon_variant 0.18
rrl 1475171 n.1514C>A non_coding_transcript_exon_variant 0.22
rrl 1475172 n.1515A>G non_coding_transcript_exon_variant 0.22
rrl 1475508 n.1851A>T non_coding_transcript_exon_variant 0.83
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.92
rrl 1475536 n.1879C>A non_coding_transcript_exon_variant 0.92
rrl 1475538 n.1881T>A non_coding_transcript_exon_variant 0.92
rrl 1475539 n.1882A>T non_coding_transcript_exon_variant 0.92
rrl 1475545 n.1888T>G non_coding_transcript_exon_variant 0.85
rrl 1475548 n.1891C>T non_coding_transcript_exon_variant 0.85
rrl 1475549 n.1892T>C non_coding_transcript_exon_variant 0.85
rrl 1475550 n.1893A>G non_coding_transcript_exon_variant 0.85
rrl 1475649 n.1992A>G non_coding_transcript_exon_variant 0.5
rrl 1475652 n.1995C>T non_coding_transcript_exon_variant 0.43
rrl 1475657 n.2000A>G non_coding_transcript_exon_variant 0.43
rrl 1475659 n.2002G>T non_coding_transcript_exon_variant 0.5
rrl 1475692 n.2035G>C non_coding_transcript_exon_variant 0.85
rrl 1475751 n.2094C>G non_coding_transcript_exon_variant 0.85
rrl 1475752 n.2095C>G non_coding_transcript_exon_variant 0.85
rrl 1475753 n.2096C>G non_coding_transcript_exon_variant 0.85
rrl 1475769 n.2112T>C non_coding_transcript_exon_variant 0.79
rrl 1475775 n.2118G>T non_coding_transcript_exon_variant 0.79
rrl 1475776 n.2119G>C non_coding_transcript_exon_variant 0.79
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.79
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.87
rrl 1475896 n.2239A>G non_coding_transcript_exon_variant 0.87
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.87
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.87
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.87
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.87
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.82
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.82
rrl 1475963 n.2306G>T non_coding_transcript_exon_variant 0.74
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.73
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.68
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.71
rrl 1475997 n.2340A>G non_coding_transcript_exon_variant 0.69
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.69
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.72
rrl 1476025 n.2368G>T non_coding_transcript_exon_variant 0.67
rrl 1476030 n.2373A>G non_coding_transcript_exon_variant 0.67
rrl 1476032 n.2375C>A non_coding_transcript_exon_variant 0.65
rrl 1476034 n.2377C>G non_coding_transcript_exon_variant 0.65
rrl 1476045 n.2388G>C non_coding_transcript_exon_variant 0.64
rrl 1476046 n.2389G>A non_coding_transcript_exon_variant 0.62
rrl 1476047 n.2390G>T non_coding_transcript_exon_variant 0.62
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.62
rrl 1476056 n.2399G>A non_coding_transcript_exon_variant 0.65
rrl 1476076 n.2419A>G non_coding_transcript_exon_variant 0.62
rrl 1476079 n.2422G>A non_coding_transcript_exon_variant 0.6
rrl 1476080 n.2423T>C non_coding_transcript_exon_variant 0.6
rrl 1476081 n.2424A>T non_coding_transcript_exon_variant 0.6
rrl 1476082 n.2425T>C non_coding_transcript_exon_variant 0.6
rrl 1476086 n.2429G>A non_coding_transcript_exon_variant 0.6
rrl 1476087 n.2430C>T non_coding_transcript_exon_variant 0.57
rrl 1476095 n.2438C>T non_coding_transcript_exon_variant 0.57
rrl 1476103 n.2446C>G non_coding_transcript_exon_variant 0.57
rrl 1476104 n.2448delG non_coding_transcript_exon_variant 0.57
rrl 1476110 n.2453G>C non_coding_transcript_exon_variant 0.67
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.68
rrl 1476119 n.2462G>A non_coding_transcript_exon_variant 0.7
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.75
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.77
rrl 1476165 n.2508T>A non_coding_transcript_exon_variant 0.77
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.79
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.79
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.84
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.9
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.9
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.9
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.9
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.9
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.92
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.9
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.9
rrl 1476297 n.2640C>G non_coding_transcript_exon_variant 0.9
rrl 1476298 n.2641C>G non_coding_transcript_exon_variant 0.9
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.9
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.9
rrl 1476309 n.2652G>C non_coding_transcript_exon_variant 0.89
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.91
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.87
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.94
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.94
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.79
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.13
rrl 1476443 n.2786G>C non_coding_transcript_exon_variant 0.13
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.76
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.68
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.59
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.61
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.61
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.56
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.65
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.65
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.63
rrl 1476540 n.2883C>T non_coding_transcript_exon_variant 0.62
rrl 1476544 n.2887T>A non_coding_transcript_exon_variant 0.52
rrl 1476566 n.2909A>T non_coding_transcript_exon_variant 0.51
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.59
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.51
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.5
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.5
rrl 1476596 n.2939C>T non_coding_transcript_exon_variant 0.47
rrl 1476601 n.2944G>A non_coding_transcript_exon_variant 0.45
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.45
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.39
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.33
rrl 1476628 n.2971T>G non_coding_transcript_exon_variant 0.31
rrl 1476629 n.2972C>A non_coding_transcript_exon_variant 0.31
rrl 1476630 n.2973A>T non_coding_transcript_exon_variant 0.31
inhA 1674218 p.Asp6Gly missense_variant 0.13
rpsA 1833955 c.414G>C synonymous_variant 0.71
rpsA 1833959 p.Leu140Val missense_variant 0.71
rpsA 1833970 c.429G>C synonymous_variant 0.71
rpsA 1833979 c.438T>C synonymous_variant 0.69
rpsA 1833985 c.444G>C synonymous_variant 0.69
rpsA 1834061 p.Ile174Leu missense_variant 0.3
rpsA 1834069 c.528G>C synonymous_variant 0.3
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834210 c.669C>T synonymous_variant 0.2
rpsA 1834222 c.681T>C synonymous_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153970 p.Asp714Glu missense_variant 0.17
katG 2154212 p.Leu634Ile missense_variant 0.13
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.15
PPE35 2170053 p.Thr187Ser missense_variant 0.15
PPE35 2170066 p.Ala183Thr missense_variant 0.2
PPE35 2170294 p.Pro107Ser missense_variant 1.0
Rv1979c 2222874 c.291C>A synonymous_variant 0.4
Rv1979c 2223215 c.-51T>C upstream_gene_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289919 c.-678C>A upstream_gene_variant 0.14
kasA 2518509 p.Gly132Asp missense_variant 1.0
folC 2746764 c.835C>T synonymous_variant 0.13
thyA 3074368 p.Arg35Leu missense_variant 0.29
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474829 p.Pro275Thr missense_variant 0.13
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3642356 c.822C>T synonymous_variant 0.14
fbiB 3642757 p.Val408Asp missense_variant 0.25
alr 3841288 p.Ile45Val missense_variant 0.13
clpC1 4038866 p.Lys613Asn missense_variant 0.25
clpC1 4040069 c.636G>C synonymous_variant 0.13
clpC1 4040123 c.582G>A synonymous_variant 0.13
clpC1 4040129 c.576C>G synonymous_variant 0.14
embC 4240835 c.975_985delCTGGTACTACG frameshift_variant 0.14
embC 4241484 p.Val541Ala missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4245115 p.Gly628Val missense_variant 0.13
embB 4246593 p.Arg27His missense_variant 0.14
aftB 4267647 p.Asp397Gly missense_variant 1.0
ubiA 4269707 p.Gly43Cys missense_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407795 c.408A>G synonymous_variant 0.17
gid 4407927 p.Glu92Asp missense_variant 1.0
gid 4407980 p.Pro75Thr missense_variant 0.17