TB-Profiler result

Run: ERR10748220

Summary

Run ID: ERR10748220

Sample name:

Date: 31-03-2023 10:47:53

Number of reads: 595776

Percentage reads mapped: 99.9

Strain: lineage4.3.2.1

Drug-resistance: MDR-TB


Download CSV Download TXT Download PDF Download JSON
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
lineage4.3.2 Euro-American (LAM) LAM3 None 1.0
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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 761161 p.Leu452Pro missense_variant 1.0 rifampicin
rpsL 781687 p.Lys43Arg missense_variant 1.0 streptomycin
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
gyrB 5520 p.Pro94Leu missense_variant 1.0
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 760748 c.942C>T synonymous_variant 1.0
rpoB 761401 p.Arg532His missense_variant 0.1
rpoC 764995 c.1626C>G synonymous_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
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrs 1472902 n.1057C>T non_coding_transcript_exon_variant 0.19
inhA 1674950 p.Leu250Pro missense_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918433 p.Pro165Leu missense_variant 0.12
PPE35 2167985 p.Met876Ile missense_variant 0.11
Rv1979c 2222550 c.615C>T synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290107 c.-866T>A upstream_gene_variant 1.0
pepQ 2860111 p.Thr103Arg missense_variant 0.11
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448313 c.-190delC upstream_gene_variant 0.1
Rv3083 3449823 p.Asn440Lys missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878592 c.-85C>G upstream_gene_variant 0.13
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038501 p.Ile735Thr missense_variant 0.1
embC 4242620 p.Val920Ile missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0