TB-Profiler result

Run: SRR18715244
Summary

Run ID: SRR18715244

Sample name:

Date: 03-04-2023 20:25:13

Number of reads: 3907370

Percentage reads mapped: 99.56

Strain: lineage4.1

Drug-resistance: HR-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
lineage4.1 Euro-American T;X;H 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
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
folC 2747151 p.Ser150Gly missense_variant 1.0 para-aminosalicylic_acid
embB 4249583 p.Asp1024Asn 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 9304 p.Gly668Asp missense_variant 1.0
mshA 576113 p.Arg256Gly missense_variant 0.29
mshA 576616 c.1269G>C synonymous_variant 0.18
rpoC 764367 p.Gly333Ala missense_variant 0.18
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.21
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801019 p.Thr71Ala missense_variant 1.0
atpE 1461209 c.165C>T synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170065 p.Ala183Gly missense_variant 0.28
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860109 p.Val104Met missense_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.73
fbiD 3339751 p.Ala212Pro missense_variant 0.22
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878590 c.-83G>C upstream_gene_variant 0.15
rpoA 3878597 c.-90G>C upstream_gene_variant 0.23
rpoA 3878637 c.-130G>C upstream_gene_variant 0.29
rpoA 3878641 c.-134C>G upstream_gene_variant 0.72
embC 4240409 p.Pro183Ala missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.24
embB 4249408 c.2895G>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407993 p.Ser70Arg missense_variant 1.0