TB-Profiler result

Run: SRR22528577
Summary

Run ID: SRR22528577

Sample name:

Date: 04-04-2023 04:19:09

Number of reads: 3189760

Percentage reads mapped: 99.68

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
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 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 764573 p.Leu402Phe missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 766698 p.Gln1110Pro missense_variant 1.0
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 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
kasA 2518919 p.Gly269Ser missense_variant 1.0
pepQ 2860144 p.Val92Gly missense_variant 0.14
pepQ 2860153 p.Glu89Ala missense_variant 0.13
Rv2752c 3065032 p.Gly387Glu missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339720 c.603C>G synonymous_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568428 c.252A>G synonymous_variant 0.23
rpoA 3878653 c.-146A>C upstream_gene_variant 0.18
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4242182 p.Ala774Ser missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246553 c.40C>A synonymous_variant 0.19
embB 4247028 p.Leu172Arg missense_variant 0.25
embB 4247033 p.Ser174Arg missense_variant 0.14
embB 4247039 p.Phe176Val missense_variant 0.14
embB 4247046 p.Asp178Ala missense_variant 0.12
embB 4247055 p.Leu181Gln missense_variant 0.22
embB 4247080 p.Phe189Leu missense_variant 0.15
embB 4248324 p.Ala604Gly missense_variant 0.16
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407754 p.Met150Arg missense_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0