TB-Profiler result

Run: ERR4812840
Summary

Run ID: ERR4812840

Sample name:

Date: 01-04-2023 12:22:52

Number of reads: 7483059

Percentage reads mapped: 99.43

Strain: lineage4.1.1

Drug-resistance: MDR-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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 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
rpoB 761139 p.His445Asp missense_variant 1.0 rifampicin
katG 2155168 p.Ser315Thr missense_variant 1.0 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 9304 p.Gly668Asp missense_variant 1.0
mshA 576341 c.997delC frameshift_variant 0.12
mshA 576718 c.1371C>A synonymous_variant 0.4
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726210 c.18T>C synonymous_variant 1.0
pepQ 2859620 p.Gly267Cys missense_variant 0.17
pepQ 2859624 c.795G>T synonymous_variant 0.22
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339550 p.Gly145Arg missense_variant 1.0
fbiD 3339553 c.437_438delCC frameshift_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3641447 p.Thr302Met missense_variant 1.0
fbiB 3642055 p.Arg174His missense_variant 1.0
rpoA 3877553 p.Glu319Lys missense_variant 1.0
rpoA 3878601 c.-95delG upstream_gene_variant 0.38
rpoA 3878613 c.-113_-107delCAACCCA upstream_gene_variant 0.12
clpC1 4038217 p.Pro830Thr missense_variant 0.22
embC 4240516 c.654G>A synonymous_variant 0.29
embC 4240897 c.1035C>G synonymous_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244387 c.1155C>T synonymous_variant 0.18
embB 4247000 p.Gly163Trp missense_variant 0.14
embB 4249408 c.2895G>A synonymous_variant 1.0
ubiA 4270017 c.-184G>T upstream_gene_variant 0.16
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408105 p.Arg33Pro missense_variant 1.0