TB-Profiler result

Run: ERR4872203
Summary

Run ID: ERR4872203

Sample name:

Date: 01-04-2023 21:26:54

Number of reads: 326685

Percentage reads mapped: 99.41

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
pncA 2289105 p.Ala46Glu missense_variant 1.0 pyrazinamide
ahpC 2726145 c.-48G>A upstream_gene_variant 1.0 isoniazid
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
gyrB 5062 c.-178T>C upstream_gene_variant 0.29
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9516 p.Glu739* stop_gained 0.29
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
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765570 p.Ala734Val missense_variant 1.0
rpoC 767086 c.3717C>T synonymous_variant 0.33
mmpL5 776042 c.2438delG frameshift_variant 0.33
mmpL5 776303 c.2178G>A synonymous_variant 0.5
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781605 p.Ile16Val missense_variant 0.4
fbiC 1304305 p.Asn459Asp missense_variant 0.5
fbiC 1304487 c.1557C>T synonymous_variant 1.0
fbiC 1304846 p.Ala639Val missense_variant 0.25
Rv1258c 1407031 c.310C>T synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474783 n.1126G>A non_coding_transcript_exon_variant 0.5
tlyA 1918161 c.222G>A synonymous_variant 0.67
ndh 2102949 p.Lys32Glu missense_variant 1.0
katG 2154679 p.Ala478Val missense_variant 0.67
PPE35 2168105 c.2508C>T synonymous_variant 0.67
PPE35 2168131 p.Pro828Ser missense_variant 0.67
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290211 c.-970G>A upstream_gene_variant 0.67
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
folC 2746928 p.Pro224His missense_variant 0.4
thyA 3074124 c.348G>A synonymous_variant 0.29
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087111 p.Ala98Thr missense_variant 0.4
ald 3087164 c.345T>A synonymous_variant 0.5
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612698 p.Leu140Pro missense_variant 0.5
ddn 3986809 c.-35G>A upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244435 c.1203G>A synonymous_variant 0.4
embB 4248589 c.2076C>A synonymous_variant 0.33
embB 4249122 p.Asp870Gly missense_variant 0.67
embB 4249123 c.2613delG frameshift_variant 0.67
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407628 p.Gly192Asp missense_variant 0.67