TB-Profiler result

Run: SRR22528520

Summary

Run ID: SRR22528520

Sample name:

Date: 04-04-2023 04:17:46

Number of reads: 1569070

Percentage reads mapped: 99.63

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 0.99
lineage4.3.3 Euro-American (LAM) LAM;T RD115 0.98
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
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
embB 4247729 p.Gly406Ser missense_variant 0.98 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 0.98
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 764546 p.Gly393Arg missense_variant 0.14
rpoC 764944 p.His525Gln missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 0.97
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303701 c.771C>T synonymous_variant 0.98
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673579 p.Arg47Pro missense_variant 0.16
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
kasA 2519087 p.Ala325Pro missense_variant 0.18
kasA 2519091 p.Ile326Asn missense_variant 0.22
kasA 2519124 p.Tyr337Leu missense_variant 0.14
pepQ 2860140 c.279A>G synonymous_variant 0.13
pepQ 2860144 p.Val92Gly missense_variant 0.13
pepQ 2860146 c.273C>G synonymous_variant 0.14
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087828 p.Pro337Thr missense_variant 0.21
fbiD 3339726 c.609A>T synonymous_variant 0.17
fbiD 3339746 p.Ala210Gly missense_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568425 c.255T>G synonymous_variant 0.12
whiB7 3568428 c.252A>G synonymous_variant 0.18
whiB7 3568441 p.Lys80Thr missense_variant 0.14
rpoA 3878630 c.-123G>T upstream_gene_variant 0.2
clpC1 4038287 c.2418C>T synonymous_variant 0.98
clpC1 4040902 c.-198T>G upstream_gene_variant 0.12
embC 4242182 p.Ala774Ser missense_variant 1.0
embC 4242497 p.Arg879Trp missense_variant 0.18
embC 4242509 p.Leu883Val missense_variant 0.12
embA 4242526 c.-707C>G upstream_gene_variant 0.21
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246538 p.Lys9Gln missense_variant 0.25
embB 4246542 p.Ser10Asn missense_variant 0.22
embB 4246544 p.Thr11Pro missense_variant 0.22
embB 4247028 p.Leu172Arg missense_variant 0.2
embB 4247055 p.Leu181Gln missense_variant 0.16
embB 4248309 p.Phe599Cys missense_variant 0.12
embB 4248319 c.1806A>T synonymous_variant 0.18
embB 4248324 p.Ala604Gly missense_variant 0.21
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338599 c.-78A>C upstream_gene_variant 1.0
gid 4407754 p.Met150Arg missense_variant 0.97
gid 4408156 p.Leu16Arg missense_variant 0.98