TB-Profiler result

Run: ERR4811035
Summary

Run ID: ERR4811035

Sample name:

Date: 01-04-2023 10:55:33

Number of reads: 2815505

Percentage reads mapped: 37.31

Strain: lineage4.5;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 0.56
lineage4 Euro-American LAM;T;S;X;H None 0.42
lineage4.5 Euro-American H;T RD122 0.35
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.6
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.58
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
gyrA 7582 p.Asp94Gly missense_variant 0.49 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
rpoB 761127 p.Ser441Ala missense_variant 0.26 rifampicin
rpoB 761196 p.Leu464Met missense_variant 0.28 rifampicin
rpsL 781821 p.Lys88Arg missense_variant 0.26 streptomycin
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.82 kanamycin, capreomycin, aminoglycosides, amikacin
rrs 1473329 n.1484G>T non_coding_transcript_exon_variant 0.66 kanamycin, capreomycin, aminoglycosides, amikacin
katG 2155168 p.Ser315Thr missense_variant 0.57 isoniazid
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 7892 c.591G>A synonymous_variant 0.44
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 0.64
ccsA 620029 c.139C>T synonymous_variant 0.37
ccsA 620625 p.Ile245Met missense_variant 0.49
rpoB 761102 c.1296A>G synonymous_variant 0.13
rpoB 761126 c.1320G>C synonymous_variant 0.26
rpoB 761133 c.1327_1329delTTGinsCTC synonymous_variant 0.25
rpoB 761147 c.1341C>T synonymous_variant 0.33
rpoB 761150 c.1344A>C synonymous_variant 0.32
rpoB 761165 c.1359G>C synonymous_variant 0.32
rpoB 761180 c.1374A>C synonymous_variant 0.29
rpoB 761186 p.Glu460Asp missense_variant 0.28
rpoB 761189 c.1383T>C synonymous_variant 0.28
rpoB 761195 c.1389G>C synonymous_variant 0.28
rpoB 761207 c.1401C>A synonymous_variant 0.27
rpoB 761213 c.1407G>C synonymous_variant 0.27
rpoB 761216 c.1410C>T synonymous_variant 0.27
rpoB 761218 p.Pro471His missense_variant 0.27
rpoB 761231 c.1425C>A synonymous_variant 0.28
rpoB 761234 c.1428G>C synonymous_variant 0.28
rpoB 761243 c.1437G>C synonymous_variant 0.29
rpoB 761249 c.1443A>G synonymous_variant 0.28
rpoB 761258 c.1452G>A synonymous_variant 0.16
rpoB 761261 c.1455G>C synonymous_variant 0.16
rpoB 761264 c.1458C>G synonymous_variant 0.16
rpoB 761933 c.2127G>C synonymous_variant 0.25
rpoB 761951 c.2145G>C synonymous_variant 0.32
rpoB 761955 p.Ile717Phe missense_variant 0.33
rpoB 761972 c.2166C>T synonymous_variant 0.4
rpoB 762002 c.2196C>G synonymous_variant 0.4
rpoB 762003 p.Asn733Gln missense_variant 0.4
rpoB 762011 c.2205G>C synonymous_variant 0.39
rpoB 762014 c.2208C>G synonymous_variant 0.39
rpoB 762015 p.Glu737Gln missense_variant 0.39
rpoB 762020 p.Glu738Asp missense_variant 0.38
rpoB 762036 p.Ile744Val missense_variant 0.38
rpoB 762053 c.2247T>C synonymous_variant 0.34
rpoB 762057 p.Ile751Val missense_variant 0.34
rpoB 762062 c.2256T>C synonymous_variant 0.34
rpoB 762068 c.2262C>T synonymous_variant 0.32
rpoB 762083 c.2277T>C synonymous_variant 0.2
rpoB 762084 p.Ala760Pro missense_variant 0.19
rpoB 762098 c.2292C>G synonymous_variant 0.14
rpoB 762101 c.2295C>G synonymous_variant 0.12
rpoB 762390 p.Leu862Met missense_variant 0.13
rpoC 762398 c.-972T>C upstream_gene_variant 0.13
rpoB 762402 p.Tyr866His missense_variant 0.14
rpoC 762410 c.-960T>C upstream_gene_variant 0.18
rpoC 762416 c.-954A>G upstream_gene_variant 0.18
rpoC 762443 c.-927G>C upstream_gene_variant 0.2
rpoC 762452 c.-918G>T upstream_gene_variant 0.19
rpoC 762470 c.-900G>C upstream_gene_variant 0.17
rpoB 762474 p.Gly890Ser missense_variant 0.16
rpoC 762485 c.-885G>C upstream_gene_variant 0.17
rpoC 762491 c.-879T>G upstream_gene_variant 0.17
rpoC 763031 c.-339T>C upstream_gene_variant 0.53
rpoC 763456 c.87A>G synonymous_variant 0.22
rpoC 763462 c.93G>C synonymous_variant 0.33
rpoC 763483 c.114G>C synonymous_variant 0.39
rpoC 763486 c.117T>G synonymous_variant 0.4
rpoC 763492 c.123G>C synonymous_variant 0.4
rpoC 763496 p.Lys43Arg missense_variant 0.39
rpoC 763507 c.138G>C synonymous_variant 0.48
rpoC 763528 c.159G>C synonymous_variant 0.56
rpoC 763531 c.162G>C synonymous_variant 0.57
rpoC 763534 c.165T>C synonymous_variant 0.58
rpoC 763546 c.177A>G synonymous_variant 0.62
rpoC 763570 c.201G>C synonymous_variant 0.67
rpoC 763603 c.234C>T synonymous_variant 0.69
rpoC 763622 p.Ala85Ser missense_variant 0.72
rpoC 763627 p.Lys86Asn missense_variant 0.72
rpoC 763639 p.Glu90Asp missense_variant 0.72
rpoC 763642 c.273G>C synonymous_variant 0.71
rpoC 763652 p.Ile95Val missense_variant 0.68
rpoC 763660 c.291T>C synonymous_variant 0.68
rpoC 763666 c.297G>T synonymous_variant 0.67
rpoC 763672 c.303C>G synonymous_variant 0.67
rpoC 763696 c.327T>C synonymous_variant 0.6
rpoC 763699 c.330G>T synonymous_variant 0.6
rpoC 763708 c.339G>C synonymous_variant 0.55
rpoC 763714 c.345G>C synonymous_variant 0.53
rpoC 763717 c.348T>C synonymous_variant 0.51
rpoC 763723 c.354G>C synonymous_variant 0.5
rpoC 763727 p.Leu120Ile missense_variant 0.49
rpoC 763732 c.363C>G synonymous_variant 0.49
rpoC 763744 c.375G>C synonymous_variant 0.46
rpoC 763751 p.Ile128Val missense_variant 0.43
rpoC 763765 c.396T>G synonymous_variant 0.31
rpoC 763772 p.Val135Met missense_variant 0.29
rpoC 763781 p.Ser138Ala missense_variant 0.25
rpoC 764296 c.927G>C synonymous_variant 0.13
rpoC 764320 c.951C>T synonymous_variant 0.15
rpoC 764323 c.954G>C synonymous_variant 0.15
rpoC 764326 c.957G>C synonymous_variant 0.15
rpoC 764329 c.960C>T synonymous_variant 0.15
rpoC 764332 c.963G>T synonymous_variant 0.16
rpoC 764338 p.Glu323Asp missense_variant 0.23
rpoC 764341 c.972G>T synonymous_variant 0.24
rpoC 764344 c.975C>T synonymous_variant 0.26
rpoC 764365 c.996C>T synonymous_variant 0.38
rpoC 764368 c.999C>A synonymous_variant 0.38
rpoC 764371 c.1002G>C synonymous_variant 0.38
rpoC 764377 c.1008C>G synonymous_variant 0.38
rpoC 764380 c.1011G>C synonymous_variant 0.38
rpoC 764383 c.1014C>T synonymous_variant 0.38
rpoC 764387 c.1018T>C synonymous_variant 0.36
rpoC 764405 c.1036_1038delAGGinsCGC synonymous_variant 0.4
rpoC 764428 c.1059G>T synonymous_variant 0.42
rpoC 764434 c.1065A>G synonymous_variant 0.38
rpoC 764435 c.1066_1068delAGGinsCGT synonymous_variant 0.38
rpoC 764441 p.Ile358Leu missense_variant 0.39
rpoC 764449 c.1080G>C synonymous_variant 0.38
rpoC 764452 c.1083T>C synonymous_variant 0.38
rpoC 764458 c.1089G>C synonymous_variant 0.38
rpoC 764461 c.1092A>G synonymous_variant 0.39
rpoC 764470 c.1101C>G synonymous_variant 0.39
rpoC 764485 c.1116G>C synonymous_variant 0.43
rpoC 764497 c.1128A>G synonymous_variant 0.37
rpoC 764498 p.Ser377Ala missense_variant 0.37
rpoC 764503 c.1134G>T synonymous_variant 0.36
rpoC 764507 p.Ala380Ser missense_variant 0.36
rpoC 764521 c.1152T>C synonymous_variant 0.44
rpoC 764524 c.1155C>G synonymous_variant 0.44
rpoC 764527 c.1158C>A synonymous_variant 0.46
rpoC 764533 c.1164C>T synonymous_variant 0.48
rpoC 764536 c.1167G>T synonymous_variant 0.49
rpoC 764548 c.1179G>A synonymous_variant 0.54
rpoC 764566 c.1197C>G synonymous_variant 0.53
rpoC 764573 p.Leu402Ile missense_variant 0.53
rpoC 764578 c.1209C>G synonymous_variant 0.55
rpoC 764581 c.1212T>C synonymous_variant 0.55
rpoC 764582 p.Leu405Met missense_variant 0.55
rpoC 764587 c.1218C>G synonymous_variant 0.57
rpoC 764602 c.1233C>T synonymous_variant 0.59
rpoC 764605 c.1236G>T synonymous_variant 0.59
rpoC 764611 c.1242G>T synonymous_variant 0.62
rpoC 764623 c.1254C>G synonymous_variant 0.62
rpoC 764632 c.1263T>C synonymous_variant 0.62
rpoC 764650 c.1281G>T synonymous_variant 0.65
rpoC 764671 c.1302G>C synonymous_variant 0.64
rpoC 764677 c.1308C>G synonymous_variant 0.62
rpoC 764701 c.1332C>G synonymous_variant 0.62
rpoC 764705 p.Leu446Thr missense_variant 0.62
rpoC 764713 c.1344G>C synonymous_variant 0.66
rpoC 764746 c.1377G>T synonymous_variant 0.7
rpoC 764751 p.Val461Asp missense_variant 0.68
rpoC 764758 c.1389C>G synonymous_variant 0.67
rpoC 764764 c.1395T>C synonymous_variant 0.66
rpoC 764767 c.1398G>C synonymous_variant 0.66
rpoC 764780 c.1411_1413delAGCinsTCG synonymous_variant 0.63
rpoC 764797 c.1428G>C synonymous_variant 0.58
rpoC 764803 c.1434C>T synonymous_variant 0.54
rpoC 764806 p.Gln479His missense_variant 0.54
rpoC 764808 p.Arg480His missense_variant 0.53
rpoC 764813 p.Gln482Val missense_variant 0.54
rpoC 764843 p.Ala492Thr missense_variant 0.54
rpoC 764854 c.1485G>C synonymous_variant 0.54
rpoC 764858 c.1489T>C synonymous_variant 0.5
rpoC 764869 c.1500C>T synonymous_variant 0.47
rpoC 764875 c.1506C>A synonymous_variant 0.44
rpoC 764887 c.1518G>A synonymous_variant 0.34
rpoC 764888 c.1519_1521delTTGinsCTC synonymous_variant 0.34
rpoC 764893 c.1524T>C synonymous_variant 0.36
rpoC 764902 c.1533C>G synonymous_variant 0.35
rpoC 764911 c.1542A>C synonymous_variant 0.35
rpoC 764912 p.Met515Gln missense_variant 0.35
rpoC 764918 p.Val517Ile missense_variant 0.34
rpoC 764923 c.1554A>G synonymous_variant 0.33
rpoC 764935 c.1566T>C synonymous_variant 0.32
rpoC 764948 c.1579T>C synonymous_variant 0.31
rpoC 764953 c.1584G>C synonymous_variant 0.31
rpoC 764958 p.Glu530Ala missense_variant 0.31
rpoC 764962 c.1593G>C synonymous_variant 0.3
rpoC 764968 c.1599T>C synonymous_variant 0.29
rpoC 764971 c.1602C>T synonymous_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.42
mmpS5 779615 c.-710C>G upstream_gene_variant 0.63
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781802 c.243G>C synonymous_variant 0.25
rpsL 781805 c.246G>C synonymous_variant 0.25
rpsL 781811 c.252C>T synonymous_variant 0.25
rpsL 781814 c.255C>T synonymous_variant 0.25
rpsL 781817 c.258G>T synonymous_variant 0.26
rpsL 781829 c.270G>C synonymous_variant 0.28
rpsL 781832 c.273T>G synonymous_variant 0.29
rpsL 781853 c.294C>T synonymous_variant 0.29
rpsL 781856 c.297C>T synonymous_variant 0.29
rpsL 781859 c.300T>C synonymous_variant 0.3
rpsL 781865 c.306G>C synonymous_variant 0.3
rpsL 781868 c.309T>C synonymous_variant 0.3
rpsL 781871 c.312G>C synonymous_variant 0.3
rpsL 781884 p.Asn109Gly missense_variant 0.31
rpsL 781892 c.333A>G synonymous_variant 0.29
rpsL 781898 c.339A>T synonymous_variant 0.29
rpsL 781907 c.348T>C synonymous_variant 0.3
rpsL 781916 c.357T>G synonymous_variant 0.28
fbiC 1303609 p.Gly227Arg missense_variant 0.41
Rv1258c 1406760 c.580_581insC frameshift_variant 0.59
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.34
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.35
rrs 1472107 n.262A>G non_coding_transcript_exon_variant 0.35
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.34
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.34
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.36
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.44
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.46
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.63
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.63
rrs 1472222 n.377G>A non_coding_transcript_exon_variant 0.61
rrs 1472225 n.380C>G non_coding_transcript_exon_variant 0.62
rrs 1472229 n.384C>T non_coding_transcript_exon_variant 0.61
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.55
rrs 1472251 n.406G>C non_coding_transcript_exon_variant 0.55
rrs 1472279 n.434T>G non_coding_transcript_exon_variant 0.27
rrs 1472368 n.523A>G non_coding_transcript_exon_variant 0.25
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.59
rrs 1472416 n.571C>T non_coding_transcript_exon_variant 0.6
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.62
rrs 1472430 n.585C>T non_coding_transcript_exon_variant 0.61
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.6
rrs 1472437 n.592T>G non_coding_transcript_exon_variant 0.6
rrs 1472438 n.593T>A non_coding_transcript_exon_variant 0.6
rrs 1472439 n.594C>A non_coding_transcript_exon_variant 0.6
rrs 1472446 n.601T>A non_coding_transcript_exon_variant 0.62
rrs 1472451 n.606C>G non_coding_transcript_exon_variant 0.61
rrs 1472456 n.611T>C non_coding_transcript_exon_variant 0.62
rrs 1472460 n.615T>C non_coding_transcript_exon_variant 0.61
rrs 1472461 n.616G>C non_coding_transcript_exon_variant 0.61
rrs 1472471 n.626G>T non_coding_transcript_exon_variant 0.62
rrs 1472472 n.627G>T non_coding_transcript_exon_variant 0.61
rrs 1472473 n.628G>T non_coding_transcript_exon_variant 0.62
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.68
rrs 1472493 n.648T>G non_coding_transcript_exon_variant 0.68
rrs 1472495 n.650C>A non_coding_transcript_exon_variant 0.7
rrs 1472507 n.662C>A non_coding_transcript_exon_variant 0.74
rrs 1472522 n.677T>G non_coding_transcript_exon_variant 0.76
rrs 1472571 n.726G>T non_coding_transcript_exon_variant 0.72
rrs 1472582 n.737G>T non_coding_transcript_exon_variant 0.73
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.74
rrs 1472585 n.740A>C non_coding_transcript_exon_variant 0.74
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.77
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.8
rrs 1472623 n.778A>C non_coding_transcript_exon_variant 0.8
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.77
rrs 1472767 n.922G>C non_coding_transcript_exon_variant 0.66
rrs 1472791 n.946G>T non_coding_transcript_exon_variant 0.61
rrs 1472792 n.947G>C non_coding_transcript_exon_variant 0.62
rrs 1472836 n.991G>A non_coding_transcript_exon_variant 0.53
rrs 1472837 n.992C>T non_coding_transcript_exon_variant 0.52
rrs 1472840 n.995A>C non_coding_transcript_exon_variant 0.52
rrs 1472844 n.999C>A non_coding_transcript_exon_variant 0.54
rrs 1472845 n.1000G>A non_coding_transcript_exon_variant 0.53
rrs 1472847 n.1002G>A non_coding_transcript_exon_variant 0.54
rrs 1472851 n.1006A>G non_coding_transcript_exon_variant 0.54
rrs 1472856 n.1011T>C non_coding_transcript_exon_variant 0.55
rrs 1472860 n.1015C>T non_coding_transcript_exon_variant 0.54
rrs 1472862 n.1017T>C non_coding_transcript_exon_variant 0.54
rrs 1472863 n.1018T>C non_coding_transcript_exon_variant 0.54
rrs 1472866 n.1021C>T non_coding_transcript_exon_variant 0.53
rrs 1472869 n.1024G>T non_coding_transcript_exon_variant 0.53
rrs 1472873 n.1028C>T non_coding_transcript_exon_variant 0.52
rrs 1472875 n.1030T>G non_coding_transcript_exon_variant 0.52
rrs 1472878 n.1033G>A non_coding_transcript_exon_variant 0.53
rrs 1472880 n.1035G>A non_coding_transcript_exon_variant 0.55
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.67
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.67
rrs 1472957 n.1112C>A non_coding_transcript_exon_variant 0.67
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.67
rrs 1472969 n.1124A>G non_coding_transcript_exon_variant 0.69
rrs 1472970 n.1125C>G non_coding_transcript_exon_variant 0.69
rrs 1472977 n.1132G>C non_coding_transcript_exon_variant 0.7
rrs 1472978 n.1133T>C non_coding_transcript_exon_variant 0.7
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.7
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.7
rrs 1472989 n.1144G>T non_coding_transcript_exon_variant 0.69
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.7
rrs 1472996 n.1151T>C non_coding_transcript_exon_variant 0.73
rrs 1473004 n.1159T>C non_coding_transcript_exon_variant 0.76
rrs 1473029 n.1184C>G non_coding_transcript_exon_variant 0.77
rrs 1473063 n.1218C>G non_coding_transcript_exon_variant 0.78
rrs 1473065 n.1220C>A non_coding_transcript_exon_variant 0.79
rrs 1473081 n.1236C>A non_coding_transcript_exon_variant 0.82
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.84
rrs 1473105 n.1260G>A non_coding_transcript_exon_variant 0.83
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.84
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.84
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.84
rrs 1473130 n.1285G>T non_coding_transcript_exon_variant 0.85
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.87
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.86
rrs 1473226 n.1381C>G non_coding_transcript_exon_variant 0.84
rrs 1473262 n.1417T>C non_coding_transcript_exon_variant 0.8
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.78
rrs 1473283 n.1438T>C non_coding_transcript_exon_variant 0.76
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.74
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.74
rrs 1473314 n.1469A>G non_coding_transcript_exon_variant 0.68
rrs 1473315 n.1470T>C non_coding_transcript_exon_variant 0.67
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.67
rrs 1473319 n.1474C>T non_coding_transcript_exon_variant 0.67
rrs 1473320 n.1475G>A non_coding_transcript_exon_variant 0.67
rrs 1473324 n.1479G>A non_coding_transcript_exon_variant 0.67
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 0.19
rrl 1474186 n.529A>G non_coding_transcript_exon_variant 0.19
rrl 1474201 n.544T>C non_coding_transcript_exon_variant 0.2
rrl 1474202 n.545T>A non_coding_transcript_exon_variant 0.2
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.21
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.26
rrl 1474264 n.607T>A non_coding_transcript_exon_variant 0.26
rrl 1474265 n.608G>T non_coding_transcript_exon_variant 0.26
rrl 1474266 n.609T>C non_coding_transcript_exon_variant 0.26
rrl 1474269 n.612C>A non_coding_transcript_exon_variant 0.26
rrl 1474281 n.624A>G non_coding_transcript_exon_variant 0.24
rrl 1474286 n.631_634delCCTT non_coding_transcript_exon_variant 0.25
rrl 1474294 n.638_651delCTCTCCGGAGGAGG non_coding_transcript_exon_variant 0.28
rrl 1474310 n.653T>G non_coding_transcript_exon_variant 0.26
rrl 1474316 n.659T>C non_coding_transcript_exon_variant 0.25
rrl 1474348 n.691C>T non_coding_transcript_exon_variant 0.17
rrl 1474351 n.694G>T non_coding_transcript_exon_variant 0.13
rrl 1474353 n.696A>G non_coding_transcript_exon_variant 0.14
rrl 1474354 n.697C>T non_coding_transcript_exon_variant 0.14
rrl 1474355 n.698A>G non_coding_transcript_exon_variant 0.14
rrl 1474359 n.702C>G non_coding_transcript_exon_variant 0.14
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.14
rrl 1474381 n.724T>A non_coding_transcript_exon_variant 0.12
rrl 1474387 n.730C>T non_coding_transcript_exon_variant 0.12
rrl 1474466 n.809G>T non_coding_transcript_exon_variant 0.42
rrl 1474476 n.819C>T non_coding_transcript_exon_variant 0.48
rrl 1474496 n.839C>A non_coding_transcript_exon_variant 0.58
rrl 1474497 n.840G>C non_coding_transcript_exon_variant 0.57
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 0.57
rrl 1474507 n.850G>T non_coding_transcript_exon_variant 0.57
rrl 1474529 n.872A>G non_coding_transcript_exon_variant 0.6
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.59
rrl 1474540 n.883T>C non_coding_transcript_exon_variant 0.59
rrl 1474558 n.901G>A non_coding_transcript_exon_variant 0.59
rrl 1474583 n.926C>A non_coding_transcript_exon_variant 0.59
rrl 1474613 n.956T>A non_coding_transcript_exon_variant 0.44
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.15
rrl 1474734 n.1077G>T non_coding_transcript_exon_variant 0.17
rrl 1474736 n.1079C>T non_coding_transcript_exon_variant 0.18
rrl 1474749 n.1092C>T non_coding_transcript_exon_variant 0.23
rrl 1474751 n.1094G>A non_coding_transcript_exon_variant 0.23
rrl 1474753 n.1097delC non_coding_transcript_exon_variant 0.23
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.32
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.35
rrl 1474780 n.1123C>T non_coding_transcript_exon_variant 0.35
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.34
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.36
rrl 1474800 n.1143T>A non_coding_transcript_exon_variant 0.37
rrl 1474801 n.1144G>T non_coding_transcript_exon_variant 0.37
rrl 1474802 n.1145T>A non_coding_transcript_exon_variant 0.38
rrl 1474803 n.1146G>A non_coding_transcript_exon_variant 0.38
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.39
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.4
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.4
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.4
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.4
rrl 1474853 n.1196A>G non_coding_transcript_exon_variant 0.4
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.2
rrl 1475692 n.2035G>C non_coding_transcript_exon_variant 0.22
rrl 1475699 n.2042C>A non_coding_transcript_exon_variant 0.23
rrl 1475722 n.2065G>T non_coding_transcript_exon_variant 0.22
rrl 1475745 n.2089_2102delGAGGACCCGTTAAC non_coding_transcript_exon_variant 0.23
rrl 1475761 n.2104C>G non_coding_transcript_exon_variant 0.21
rrl 1475763 n.2106C>G non_coding_transcript_exon_variant 0.2
rrl 1475767 n.2110G>T non_coding_transcript_exon_variant 0.21
rrl 1475769 n.2112_2113insCAGCTTACGC non_coding_transcript_exon_variant 0.21
rrl 1475775 n.2118G>A non_coding_transcript_exon_variant 0.2
rrl 1475776 n.2119G>C non_coding_transcript_exon_variant 0.2
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.2
rrl 1475781 n.2124T>C non_coding_transcript_exon_variant 0.29
rrl 1475869 n.2212C>A non_coding_transcript_exon_variant 0.5
rrl 1475880 n.2223C>G non_coding_transcript_exon_variant 0.46
rrl 1475881 n.2224T>G non_coding_transcript_exon_variant 0.46
rrl 1475882 n.2225C>G non_coding_transcript_exon_variant 0.46
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.46
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.46
rrl 1475892 n.2235A>C non_coding_transcript_exon_variant 0.48
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.49
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.49
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.49
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.5
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.42
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.35
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.21
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.18
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.17
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 0.18
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.15
rrl 1476141 n.2484A>G non_coding_transcript_exon_variant 0.22
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.26
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.26
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.26
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.28
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.28
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.28
rrl 1476204 n.2547C>T non_coding_transcript_exon_variant 0.3
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.38
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.36
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.36
rrl 1476251 n.2594T>A non_coding_transcript_exon_variant 0.36
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.36
rrl 1476256 n.2599A>T non_coding_transcript_exon_variant 0.35
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.35
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.35
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.34
rrl 1476290 n.2633C>T non_coding_transcript_exon_variant 0.26
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.21
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.21
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.21
rrl 1476297 n.2640C>G non_coding_transcript_exon_variant 0.21
rrl 1476298 n.2641C>G non_coding_transcript_exon_variant 0.21
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.21
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.22
rrl 1476309 n.2652G>C non_coding_transcript_exon_variant 0.21
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.21
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.21
rrl 1476316 n.2659G>A non_coding_transcript_exon_variant 0.35
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.63
rrl 1476363 n.2706A>G non_coding_transcript_exon_variant 0.64
rrl 1476366 n.2709A>C non_coding_transcript_exon_variant 0.64
rrl 1476368 n.2711T>C non_coding_transcript_exon_variant 0.64
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.65
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.64
rrl 1476374 n.2717T>G non_coding_transcript_exon_variant 0.66
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.74
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.76
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.76
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.72
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.72
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.65
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.65
rrl 1476529 n.2872A>T non_coding_transcript_exon_variant 0.63
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.63
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.63
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.62
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.62
rrl 1476572 n.2915G>T non_coding_transcript_exon_variant 0.5
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.24
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.22
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.12
rpsA 1833922 p.Lys127Asn missense_variant 0.2
rpsA 1833928 c.387G>C synonymous_variant 0.23
rpsA 1833940 c.399C>T synonymous_variant 0.3
rpsA 1833949 c.408T>C synonymous_variant 0.37
rpsA 1833959 p.Leu140Val missense_variant 0.42
rpsA 1833970 c.429G>C synonymous_variant 0.47
rpsA 1833976 c.435C>T synonymous_variant 0.49
rpsA 1833979 c.438T>C synonymous_variant 0.51
rpsA 1833991 c.450C>G synonymous_variant 0.53
rpsA 1834000 c.459G>C synonymous_variant 0.53
rpsA 1834009 c.468C>T synonymous_variant 0.53
rpsA 1834012 c.471G>T synonymous_variant 0.52
rpsA 1834015 c.474G>C synonymous_variant 0.53
rpsA 1834034 p.Ile165Val missense_variant 0.52
rpsA 1834041 p.Lys167Met missense_variant 0.52
rpsA 1834046 p.Ile169Leu missense_variant 0.53
rpsA 1834069 c.528G>C synonymous_variant 0.52
rpsA 1834076 p.Asn179His missense_variant 0.48
rpsA 1834090 c.549G>C synonymous_variant 0.42
rpsA 1834099 c.558C>G synonymous_variant 0.36
rpsA 1834114 c.573G>T synonymous_variant 0.24
rpsA 1834177 c.636A>C synonymous_variant 0.51
rpsA 1834210 c.669C>T synonymous_variant 0.22
rpsA 1834222 c.681T>C synonymous_variant 0.27
rpsA 1834234 c.693G>C synonymous_variant 0.29
rpsA 1834237 c.696C>T synonymous_variant 0.31
rpsA 1834249 c.708T>C synonymous_variant 0.38
rpsA 1834261 c.720A>G synonymous_variant 0.39
rpsA 1834264 c.723G>C synonymous_variant 0.39
rpsA 1834294 c.753G>T synonymous_variant 0.38
rpsA 1834297 c.756C>G synonymous_variant 0.37
rpsA 1834298 p.Gln253Glu missense_variant 0.37
rpsA 1834303 c.762T>C synonymous_variant 0.37
rpsA 1834306 c.765T>C synonymous_variant 0.38
rpsA 1834307 p.Asp256Thr missense_variant 0.38
rpsA 1834310 p.Glu257Pro missense_variant 0.38
rpsA 1834333 p.Asp264Glu missense_variant 0.39
rpsA 1834336 c.795C>G synonymous_variant 0.39
rpsA 1834348 c.807T>C synonymous_variant 0.4
rpsA 1834354 c.813G>C synonymous_variant 0.36
rpsA 1834357 c.816T>C synonymous_variant 0.35
rpsA 1834361 c.820T>C synonymous_variant 0.33
rpsA 1834366 c.825A>G synonymous_variant 0.33
rpsA 1834369 c.828C>G synonymous_variant 0.33
rpsA 1834375 c.834G>C synonymous_variant 0.31
rpsA 1834378 c.837T>C synonymous_variant 0.31
rpsA 1834387 c.846C>T synonymous_variant 0.28
rpsA 1834395 p.Arg285Gln missense_variant 0.2
rpsA 1834397 p.His286Thr missense_variant 0.17
rpsA 1834410 p.Thr290Ile missense_variant 0.15
rpsA 1834417 c.876G>C synonymous_variant 0.13
rpsA 1834423 c.882G>C synonymous_variant 0.15
rpsA 1834435 c.894G>C synonymous_variant 0.14
rpsA 1834451 c.910T>C synonymous_variant 0.14
rpsA 1834456 c.915T>G synonymous_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.55
katG 2155979 c.133C>T synonymous_variant 0.49
PPE35 2167926 p.Leu896Ser missense_variant 0.56
PPE35 2168436 c.2176delC frameshift_variant 0.43
PPE35 2170568 p.Ile15Met missense_variant 0.44
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3065129 c.1063C>T synonymous_variant 0.53
ald 3086788 c.-32T>C upstream_gene_variant 0.58
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612037 p.Phe360Leu missense_variant 0.58
Rv3236c 3612813 p.Thr102Ala missense_variant 0.57
fbiA 3640622 p.Gln27Pro missense_variant 0.61
rpoA 3878575 c.-68C>T upstream_gene_variant 0.28
clpC1 4038318 p.Pro796Leu missense_variant 0.42
clpC1 4038798 p.Asn636Thr missense_variant 0.32
clpC1 4038860 c.1845G>C synonymous_variant 0.19
clpC1 4038878 c.1827A>G synonymous_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 0.48
embA 4244170 p.Gln313Arg missense_variant 0.55
embB 4247216 p.Ala235Thr missense_variant 0.37
aftB 4267647 p.Asp397Gly missense_variant 0.43
ethA 4326676 p.Ser266Arg missense_variant 0.57
ethR 4328015 p.Glu156Ala missense_variant 0.55
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407555 c.648A>G synonymous_variant 0.42
gid 4407588 c.615A>G synonymous_variant 0.6
gid 4407760 p.Trp148Leu missense_variant 0.58
gid 4407927 p.Glu92Asp missense_variant 0.66