TB-Profiler result

Run: SRR7070157
Summary

Run ID: SRR7070157

Sample name:

Date: 2024-04-15T05:53:46.116302

Number of reads: 818681

Percentage reads mapped: 61.93

Median coverage: 25.0

Strain: lineage4.1.1.3.1

Spoligotype:

Drug-resistance: Other

Download CSV Download TXT Download JSON
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4.1 Euro-American None 1.0
lineage4.1.1.3 Euro-American (X-type) RD193 1.0
lineage4 Euro-American None 1.0
lineage4.1.1 Euro-American (X-type) None 1.0
lineage4.1.1.3.1 Euro-American (X-type) RD193 0.99
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin
isoniazid
ethambutol
pyrazinamide
streptomycin rrs n.799C>T Uncertain significance Mutation from literature
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin rrs n.1402C>A Uncertain significance Mutation from literature
n.1484G>T Assoc w R
capreomycin rrs n.1402C>A Uncertain significance Mutation from literature
n.1484G>T Assoc w R
kanamycin rrs n.1402C>A Uncertain significance Mutation from literature
n.1484G>T Assoc w R
cycloserine
ethionamide
clofazimine
para-aminosalicylic_acid
delamanid
bedaquiline
linezolid
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 Confidence Comment
rrs 1472644 n.799C>T non_coding_transcript_exon_variant 0.76 streptomycin Uncertain significance Mutation from literature
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.72 kanamycin Uncertain significance Mutation from literature
amikacin Uncertain significance Mutation from literature
capreomycin Uncertain significance Mutation from literature
rrs 1473329 n.1484G>T non_coding_transcript_exon_variant 0.56 kanamycin Assoc w R
amikacin Assoc w R
capreomycin Assoc w R
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 Drugs Confidence
dnaA 1044 p.Met348Ile missense_variant 0.18 isoniazid Uncertain significance
gyrA 7362 p.Glu21Gln missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 7585 p.Ser95Thr missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
gyrA 9304 p.Gly668Asp missense_variant 1.0 levofloxacin Not assoc w R
moxifloxacin Not assoc w R
Rv0565c 657269 p.Ser68Pro missense_variant 1.0 ethionamide Uncertain significance
rpoB 761015 c.1209G>C synonymous_variant 0.39 rifampicin Not assoc w R - Interim
rpoB 761027 c.1221A>G synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoB 761030 c.1224G>C synonymous_variant 0.5 rifampicin
rpoB 761036 c.1230G>C synonymous_variant 0.53 rifampicin Not assoc w R - Interim
rpoB 761037 c.1231T>C synonymous_variant 0.53 rifampicin Not assoc w R - Interim
rpoB 761051 c.1245G>C synonymous_variant 0.41 rifampicin Not assoc w R - Interim
rpoB 761054 c.1248G>C synonymous_variant 0.47 rifampicin Not assoc w R - Interim
rpoB 761060 c.1254C>G synonymous_variant 0.44 rifampicin Not assoc w R - Interim
rpoB 761084 c.1278C>A synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoB 761088 c.1282_1283delAGinsTC synonymous_variant 0.33 rifampicin
rpoB 761097 c.1291_1293delAGCinsTCG synonymous_variant 0.35 rifampicin
rpoB 761102 c.1296A>G synonymous_variant 0.35 rifampicin
rpoB 761207 c.1401C>T synonymous_variant 0.24 rifampicin
rpoB 761213 c.1407G>C synonymous_variant 0.23 rifampicin
rpoB 761219 c.1413G>C synonymous_variant 0.22 rifampicin Not assoc w R - Interim
rpoB 761234 c.1428G>C synonymous_variant 0.2 rifampicin Not assoc w R - Interim
rpoB 761249 c.1443A>G synonymous_variant 0.18 rifampicin Not assoc w R - Interim
rpoB 761261 c.1455G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761262 p.Pro486Ser missense_variant 0.16 rifampicin
rpoB 761288 c.1482G>C synonymous_variant 0.16 rifampicin Not assoc w R - Interim
rpoB 761289 p.Ser495Ala missense_variant 0.16 rifampicin
rpoB 761292 p.Val496Thr missense_variant 0.15 rifampicin
rpoB 761303 c.1497G>C synonymous_variant 0.15 rifampicin Not assoc w R - Interim
rpoB 761304 p.Val500Ile missense_variant 0.15 rifampicin
rpoC 763465 c.96G>A synonymous_variant 0.22 rifampicin
rpoC 763468 c.99G>C synonymous_variant 0.23 rifampicin Not assoc w R - Interim
rpoC 763486 c.117T>C synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoC 763492 c.123G>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoC 763505 c.136C>T synonymous_variant 0.39 rifampicin
rpoC 763528 c.159G>T synonymous_variant 0.47 rifampicin
rpoC 763531 c.162G>C synonymous_variant 0.47 rifampicin Not assoc w R
rpoC 763534 c.165T>C synonymous_variant 0.46 rifampicin
rpoC 763537 c.168C>G synonymous_variant 0.45 rifampicin
rpoC 763546 c.177A>G synonymous_variant 0.47 rifampicin Not assoc w R - Interim
rpoC 763570 c.201G>T synonymous_variant 0.44 rifampicin
rpoC 763578 p.Phe70Tyr missense_variant 0.42 rifampicin
rpoC 763609 c.240C>G synonymous_variant 0.47 rifampicin
rpoC 763615 c.246G>C synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoC 763618 c.249C>G synonymous_variant 0.43 rifampicin
rpoC 763621 c.252C>T synonymous_variant 0.46 rifampicin
rpoC 763633 c.264T>G synonymous_variant 0.54 rifampicin
rpoC 763642 c.273G>C synonymous_variant 0.51 rifampicin Not assoc w R - Interim
rpoC 763660 c.291T>C synonymous_variant 0.42 rifampicin Not assoc w R - Interim
rpoC 763666 c.297G>T synonymous_variant 0.42 rifampicin
rpoC 763672 c.303C>G synonymous_variant 0.4 rifampicin Not assoc w R - Interim
rpoC 763696 c.327T>C synonymous_variant 0.32 rifampicin Not assoc w R - Interim
rpoC 763699 c.330G>T synonymous_variant 0.32 rifampicin
rpoC 763708 c.339G>C synonymous_variant 0.33 rifampicin
rpoC 763709 c.340C>T synonymous_variant 0.33 rifampicin
rpoC 763714 c.345G>C synonymous_variant 0.31 rifampicin Not assoc w R - Interim
rpoC 763717 c.348T>C synonymous_variant 0.33 rifampicin Not assoc w R - Interim
rpoC 764536 c.1167G>T synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoC 764545 c.1176C>G synonymous_variant 0.27 rifampicin
rpoC 764548 c.1179G>C synonymous_variant 0.27 rifampicin
rpoC 764554 c.1185C>A synonymous_variant 0.32 rifampicin
rpoC 764561 c.1192_1194delCCGinsGC frameshift_variant&missense_variant 0.3 rifampicin
rpoC 764566 c.1197C>G synonymous_variant 0.28 rifampicin Not assoc w R - Interim
rpoC 764575 c.1206T>G synonymous_variant 0.29 rifampicin Not assoc w R - Interim
rpoC 764581 c.1212T>C synonymous_variant 0.3 rifampicin
rpoC 764582 p.Leu405Met missense_variant 0.3 rifampicin
rpoC 764602 c.1233C>A synonymous_variant 0.45 rifampicin
rpoC 764605 c.1236G>A synonymous_variant 0.42 rifampicin
rpoC 764608 c.1239C>T synonymous_variant 0.44 rifampicin Not assoc w R - Interim
rpoC 764611 c.1242G>T synonymous_variant 0.41 rifampicin Not assoc w R - Interim
rpoC 764623 c.1254C>G synonymous_variant 0.45 rifampicin Not assoc w R - Interim
rpoC 764632 c.1263T>C synonymous_variant 0.42 rifampicin Not assoc w R - Interim
rpoC 764635 c.1266C>G synonymous_variant 0.41 rifampicin
rpoC 764644 c.1275G>C synonymous_variant 0.41 rifampicin Not assoc w R - Interim
rpoC 764647 c.1278C>T synonymous_variant 0.39 rifampicin
rpoC 764650 c.1281G>T synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoC 764653 c.1284G>C synonymous_variant 0.38 rifampicin
rpoC 764656 c.1287C>G synonymous_variant 0.39 rifampicin
rpoC 764665 c.1296C>G synonymous_variant 0.44 rifampicin
rpoC 764677 c.1308C>G synonymous_variant 0.5 rifampicin Not assoc w R - Interim
rpoC 764706 p.Leu446Gln missense_variant 0.41 rifampicin Uncertain significance
rpoC 764746 c.1377G>T synonymous_variant 0.43 rifampicin Not assoc w R - Interim
rpoC 764758 c.1389C>G synonymous_variant 0.44 rifampicin Not assoc w R - Interim
rpoC 764764 c.1395T>C synonymous_variant 0.46 rifampicin Not assoc w R - Interim
rpoC 764780 c.1411_1412delAGinsTC synonymous_variant 0.49 rifampicin
rpoC 764804 c.1435_1437delCAGinsTC frameshift_variant&missense_variant 0.38 rifampicin
rpoC 764815 c.1446A>G synonymous_variant 0.38 rifampicin Not assoc w R - Interim
rpoC 764824 c.1455T>C synonymous_variant 0.35 rifampicin Not assoc w R - Interim
rpoC 764830 c.1461C>G synonymous_variant 0.34 rifampicin
rpoC 764843 p.Ala492Thr missense_variant 0.31 rifampicin
rpoC 764858 c.1489T>C synonymous_variant 0.25 rifampicin Not assoc w R - Interim
rpoC 764869 c.1500C>T synonymous_variant 0.27 rifampicin Not assoc w R - Interim
rpoC 764872 c.1503A>G synonymous_variant 0.26 rifampicin Not assoc w R - Interim
rpoC 765150 p.Gly594Glu missense_variant 1.0 rifampicin Not assoc w R
mmpL5 775639 p.Ile948Val missense_variant 1.0 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
rpsL 781395 c.-165T>C upstream_gene_variant 1.0 streptomycin Not assoc w R
rplC 800219 c.-590T>C upstream_gene_variant 1.0 linezolid
fbiC 1303601 p.Glu224Gly missense_variant 1.0 clofazimine
pretomanid
delamanid
rrs 1471659 n.-187C>T upstream_gene_variant 1.0 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.82 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.82 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1472225 n.380C>G non_coding_transcript_exon_variant 0.81 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.86 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1472324 n.479G>C non_coding_transcript_exon_variant 0.52 streptomycin Uncertain significance
kanamycin
capreomycin
amikacin
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.56 streptomycin Uncertain significance
kanamycin
capreomycin
amikacin
rrs 1472338 n.493A>G non_coding_transcript_exon_variant 0.48 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.56 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.61 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.58 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472496 n.651T>A non_coding_transcript_exon_variant 0.58 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.62 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.72 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Not assoc w R
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.73 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.73 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.65 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.7 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.74 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.74 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.73 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.68 streptomycin
kanamycin
capreomycin
amikacin
rrs 1472674 n.829T>A non_coding_transcript_exon_variant 0.67 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472675 n.830T>A non_coding_transcript_exon_variant 0.69 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.69 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.71 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.75 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472880 n.1035G>A non_coding_transcript_exon_variant 0.57 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.79 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Not assoc w R
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.89 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.87 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.88 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.88 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.85 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.84 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.84 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.84 streptomycin Uncertain significance
kanamycin Not assoc w R
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.81 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Not assoc w R
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.73 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.76 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Not assoc w R
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.75 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473082 n.1237G>A non_coding_transcript_exon_variant 0.74 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473089 n.1244A>T non_coding_transcript_exon_variant 0.72 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.68 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.66 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.7 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 0.67 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.69 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.69 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1473129 n.1284C>T non_coding_transcript_exon_variant 0.7 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473147 n.1302G>T non_coding_transcript_exon_variant 0.74 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473164 n.1319C>A non_coding_transcript_exon_variant 0.72 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.72 streptomycin Uncertain significance
kanamycin Not assoc w R
capreomycin Not assoc w R
amikacin Not assoc w R
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.74 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Not assoc w R
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.64 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.58 streptomycin
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473292 n.1447_1449delGGAinsTGGG non_coding_transcript_exon_variant 0.6 streptomycin
kanamycin
capreomycin
amikacin
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.58 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473315 n.1470T>C non_coding_transcript_exon_variant 0.55 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.57 streptomycin Uncertain significance
kanamycin Uncertain significance
capreomycin Uncertain significance
amikacin Uncertain significance
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 0.8 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474498 n.841G>T non_coding_transcript_exon_variant 0.83 capreomycin
linezolid
rrl 1474505 n.848C>G non_coding_transcript_exon_variant 0.86 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.88 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474529 n.872A>C non_coding_transcript_exon_variant 0.84 capreomycin
linezolid
rrl 1474530 n.873G>A non_coding_transcript_exon_variant 0.79 capreomycin
linezolid
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.79 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474539 n.882C>T non_coding_transcript_exon_variant 0.79 capreomycin
linezolid
rrl 1474540 n.883T>G non_coding_transcript_exon_variant 0.79 capreomycin
linezolid
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.52 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474633 n.977_981delTCACC non_coding_transcript_exon_variant 0.47 capreomycin
linezolid
rrl 1474640 n.983_984insTTGCT non_coding_transcript_exon_variant 0.5 capreomycin
linezolid
rrl 1475722 n.2065G>T non_coding_transcript_exon_variant 0.7 capreomycin
linezolid
rrl 1475753 n.2096C>T non_coding_transcript_exon_variant 0.61 capreomycin Uncertain significance
linezolid
rrl 1475757 n.2100_2101insG non_coding_transcript_exon_variant 0.61 capreomycin
linezolid
rrl 1475760 n.2105_2106delGC non_coding_transcript_exon_variant 0.58 capreomycin
linezolid
rrl 1475764 n.2107A>T non_coding_transcript_exon_variant 0.58 capreomycin
linezolid
rrl 1475765 n.2108A>T non_coding_transcript_exon_variant 0.58 capreomycin
linezolid
rrl 1475769 n.2112_2113insC non_coding_transcript_exon_variant 0.61 capreomycin
linezolid
rrl 1475869 n.2212C>A non_coding_transcript_exon_variant 0.47 capreomycin
linezolid
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.48 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.48 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.53 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475963 n.2306G>A non_coding_transcript_exon_variant 0.47 capreomycin
linezolid
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.44 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.41 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.41 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 0.41 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.35 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1475997 n.2340A>G non_coding_transcript_exon_variant 0.35 capreomycin
linezolid
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.35 capreomycin
linezolid Uncertain significance
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.35 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.43 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.43 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.43 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.43 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.43 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.43 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.4 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476294 n.2637_2643delACCCCCGinsGGTAC non_coding_transcript_exon_variant 0.37 capreomycin
linezolid
rrl 1476308 n.2651G>T non_coding_transcript_exon_variant 0.44 capreomycin
linezolid
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.44 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.44 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.6 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.62 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.66 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.69 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.71 capreomycin Uncertain significance
linezolid
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.6 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.5 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.39 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.33 capreomycin Uncertain significance
linezolid
rrl 1476519 n.2862C>T non_coding_transcript_exon_variant 0.3 capreomycin
linezolid Uncertain significance
rrl 1476524 n.2867C>T non_coding_transcript_exon_variant 0.3 capreomycin
linezolid
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.3 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.3 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476534 n.2877A>T non_coding_transcript_exon_variant 0.3 capreomycin
linezolid
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.3 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.25 capreomycin Uncertain significance
linezolid Uncertain significance
rpsA 1833961 c.420C>G synonymous_variant 0.32 pyrazinamide
rpsA 1833970 c.429G>C synonymous_variant 0.32 pyrazinamide
rpsA 1833979 c.438T>C synonymous_variant 0.33 pyrazinamide
rpsA 1833988 c.447C>G synonymous_variant 0.32 pyrazinamide
rpsA 1833994 c.453G>C synonymous_variant 0.34 pyrazinamide
rpsA 1833997 c.456G>C synonymous_variant 0.33 pyrazinamide
rpsA 1834009 c.468C>T synonymous_variant 0.36 pyrazinamide
rpsA 1834012 c.471G>C synonymous_variant 0.36 pyrazinamide
rpsA 1834015 c.474G>C synonymous_variant 0.36 pyrazinamide
rpsA 1834024 c.483G>C synonymous_variant 0.37 pyrazinamide
rpsA 1834025 p.Gln162Ala missense_variant 0.36 pyrazinamide
rpsA 1834030 c.489C>G synonymous_variant 0.34 pyrazinamide
rpsA 1834040 p.Lys167Gln missense_variant 0.33 pyrazinamide
rpsA 1834043 p.Glu168Gln missense_variant 0.35 pyrazinamide
rpsA 1834046 p.Ile169Leu missense_variant 0.35 pyrazinamide
rpsA 1834081 c.540C>T synonymous_variant 0.35 pyrazinamide
tsnR 1854300 p.Leu232Pro missense_variant 1.0 linezolid Not assoc w R
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0 clofazimine Not assoc w R
bedaquiline Not assoc w R - Interim
Rv1979c 2223372 c.-208C>G upstream_gene_variant 1.0 clofazimine Uncertain significance
bedaquiline Uncertain significance
ald 3086788 c.-32T>C upstream_gene_variant 1.0 cycloserine
mtrB 3625065 p.Met517Leu missense_variant 1.0 bedaquiline Uncertain significance
rifampicin Not assoc w R
clpC1 4039714 p.Tyr331His missense_variant 0.24 pyrazinamide
clpC1 4039724 c.981A>G synonymous_variant 0.26 pyrazinamide
clpC1 4039730 c.975C>G synonymous_variant 0.33 pyrazinamide
clpC1 4039733 c.972G>C synonymous_variant 0.35 pyrazinamide
clpC1 4039748 c.957G>C synonymous_variant 0.36 pyrazinamide
clpC1 4039751 c.954A>G synonymous_variant 0.31 pyrazinamide
clpC1 4039757 c.948A>G synonymous_variant 0.31 pyrazinamide
clpC1 4039766 c.939T>C synonymous_variant 0.33 pyrazinamide
clpC1 4039769 c.936C>G synonymous_variant 0.33 pyrazinamide
clpC1 4039773 p.Lys311Met missense_variant 0.31 pyrazinamide
clpC1 4039775 c.930G>C synonymous_variant 0.32 pyrazinamide
clpC1 4039778 c.927A>G synonymous_variant 0.33 pyrazinamide
clpC1 4039781 c.924G>C synonymous_variant 0.33 pyrazinamide
clpC1 4039817 c.888A>T synonymous_variant 0.31 pyrazinamide
clpC1 4039820 c.885T>C synonymous_variant 0.29 pyrazinamide Not assoc w R - Interim
clpC1 4039826 c.879C>G synonymous_variant 0.24 pyrazinamide
clpC1 4039829 c.874_876delTTGinsCC frameshift_variant&missense_variant 0.24 pyrazinamide
clpC1 4039838 c.865_867delCTGinsAC frameshift_variant&missense_variant 0.22 pyrazinamide
clpC1 4039850 c.855T>C synonymous_variant 0.22 pyrazinamide
clpC1 4039898 c.807C>G synonymous_variant 0.21 pyrazinamide
clpC1 4039904 c.801A>G synonymous_variant 0.25 pyrazinamide
clpC1 4039928 c.775_777delAGCinsTCT synonymous_variant 0.32 pyrazinamide
clpC1 4039943 c.762G>C synonymous_variant 0.32 pyrazinamide
clpC1 4039946 c.759A>C synonymous_variant 0.32 pyrazinamide
clpC1 4039949 c.756G>C synonymous_variant 0.31 pyrazinamide
clpC1 4039952 c.753T>C synonymous_variant 0.31 pyrazinamide
clpC1 4039979 c.726C>G synonymous_variant 0.36 pyrazinamide
clpC1 4039982 c.723G>C synonymous_variant 0.35 pyrazinamide
clpC1 4039988 c.717C>G synonymous_variant 0.4 pyrazinamide
clpC1 4039991 c.714G>C synonymous_variant 0.39 pyrazinamide
clpC1 4039994 p.Glu237Asp missense_variant 0.39 pyrazinamide
clpC1 4039997 c.708C>A synonymous_variant 0.4 pyrazinamide
clpC1 4040001 p.His235Arg missense_variant 0.45 pyrazinamide
clpC1 4040003 c.702G>C synonymous_variant 0.39 pyrazinamide
clpC1 4040018 c.687G>C synonymous_variant 0.32 pyrazinamide
clpC1 4040021 c.684A>C synonymous_variant 0.31 pyrazinamide Not assoc w R - Interim
clpC1 4040024 c.681A>G synonymous_variant 0.31 pyrazinamide
clpC1 4040027 c.678C>G synonymous_variant 0.31 pyrazinamide
clpC1 4040030 c.675C>G synonymous_variant 0.31 pyrazinamide
clpC1 4040033 c.672G>C synonymous_variant 0.32 pyrazinamide
clpC1 4040045 c.660C>G synonymous_variant 0.32 pyrazinamide Not assoc w R - Interim
embC 4242643 c.2781C>T synonymous_variant 1.0 ethambutol Not assoc w R
embC 4242803 p.Val981Leu missense_variant 1.0 ethambutol Not assoc w R
embB 4249408 c.2895G>A synonymous_variant 1.0 ethambutol Not assoc w R
ubiA 4269540 c.294C>T synonymous_variant 1.0 ethambutol Not assoc w R
whiB6 4338595 c.-75delG upstream_gene_variant 1.0 capreomycin Not assoc w R
amikacin Not assoc w R
kanamycin Not assoc w R
whiB6 4338732 c.-211C>T upstream_gene_variant 1.0 capreomycin
amikacin
kanamycin