TB-Profiler result

Run: ERR4872202
Summary

Run ID: ERR4872202

Sample name:

Date: 01-04-2023 21:26:53

Number of reads: 345643

Percentage reads mapped: 99.5

Strain: lineage4.1.2

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
lineage4.1.2 Euro-American T;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
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
pncA 2289105 p.Ala46Glu missense_variant 1.0 pyrazinamide
ahpC 2726145 c.-48G>A upstream_gene_variant 1.0 isoniazid
embA 4243222 c.-11C>A upstream_gene_variant 1.0 ethambutol
embB 4247431 p.Met306Ile missense_variant 1.0 ethambutol
ethA 4326452 p.Ala341Val missense_variant 1.0 ethionamide
gid 4407851 c.351delG frameshift_variant 1.0 streptomycin
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
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 760618 p.Ile271Asn missense_variant 0.5
rpoB 761638 p.Pro611Leu missense_variant 0.33
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765570 p.Ala734Val missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777538 p.Leu315Met missense_variant 0.25
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303799 c.870delG frameshift_variant 0.4
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475573 n.1921delC non_coding_transcript_exon_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102949 p.Lys32Glu missense_variant 1.0
ndh 2102993 p.Val17Asp missense_variant 0.29
katG 2156366 c.-255G>A upstream_gene_variant 0.5
PPE35 2168237 c.2376G>A synonymous_variant 0.33
PPE35 2168246 c.2367C>T synonymous_variant 0.4
PPE35 2168701 p.Val638Phe missense_variant 0.4
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518072 c.-43A>G upstream_gene_variant 0.4
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
folC 2746326 p.Phe425Leu missense_variant 0.33
folC 2746374 p.Pro409Ser missense_variant 0.33
folC 2746928 p.Pro224His missense_variant 0.4
Rv2752c 3065286 p.Leu302Phe missense_variant 0.4
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087111 p.Ala98Thr missense_variant 0.4
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612791 p.Trp109Leu missense_variant 0.67
fbiA 3641470 p.Met310Val missense_variant 0.5
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244435 c.1203G>A synonymous_variant 0.25
embA 4245834 p.Leu868Met missense_variant 0.67
embB 4248589 c.2076C>A synonymous_variant 0.25
embB 4249662 p.Ala1050Val missense_variant 0.33
aftB 4268593 p.Val82Met missense_variant 0.5
aftB 4268602 p.Leu79Val missense_variant 0.5
aftB 4269207 c.-371G>A upstream_gene_variant 0.5
whiB6 4338238 p.Leu95Gln missense_variant 0.33
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407614 p.Arg197Cys missense_variant 0.67
gid 4407628 p.Gly192Asp missense_variant 0.5