TB-Profiler result

Run: ERR2516684
Summary

Run ID: ERR2516684

Sample name:

Date: 31-03-2023 21:40:32

Number of reads: 1486166

Percentage reads mapped: 99.31

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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 761155 p.Ser450Leu missense_variant 1.0 rifampicin
rpsL 781687 p.Lys43Arg missense_variant 1.0 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
embB 4247431 p.Met306Ile missense_variant 1.0 ethambutol
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576169 c.822C>T synonymous_variant 0.17
ccsA 619873 c.-18G>A upstream_gene_variant 0.12
rpoC 764616 p.Asn416Ser missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 0.98
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304945 p.Leu672Pro missense_variant 0.11
Rv1258c 1406193 p.Leu383Ser missense_variant 0.13
Rv1258c 1406570 c.771G>A synonymous_variant 0.14
Rv1258c 1406784 p.Leu186Pro missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102959 p.Asn28Lys missense_variant 0.12
PPE35 2169320 p.Leu431Phe missense_variant 0.24
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
pepQ 2859972 c.447A>G synonymous_variant 0.11
ribD 2987307 p.Ala157Pro missense_variant 0.19
Rv2752c 3065881 p.Gly104Asp missense_variant 0.97
thyA 3073806 c.666C>G synonymous_variant 0.2
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475138 p.Thr378Ala missense_variant 0.1
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.55
clpC1 4039880 c.825G>A synonymous_variant 0.12
embC 4242182 p.Ala774Ser missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244490 p.Thr420Ser missense_variant 0.12
embA 4244518 p.Leu429Pro missense_variant 0.11
ubiA 4269529 p.Ala102Gly missense_variant 0.14
ubiA 4269731 p.Ala35Ser missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0