TB-Profiler result

Run: ERR4407546

Summary

Run ID: ERR4407546

Sample name:

Date: 01-04-2023 05:49:26

Number of reads: 546813

Percentage reads mapped: 99.2

Strain: lineage4

Drug-resistance: Other


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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
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
ethA 4326531 c.942dupC frameshift_variant 0.11 ethionamide
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 6683 p.Arg482Cys missense_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8684 p.Glu461Asp missense_variant 0.11
gyrA 9064 p.Ser588Cys missense_variant 1.0
gyrA 9171 p.Val624Leu missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575159 c.-189C>G upstream_gene_variant 0.12
ccsA 620862 c.972C>A synonymous_variant 0.1
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
rrl 1475465 n.1808A>G non_coding_transcript_exon_variant 0.12
inhA 1674448 p.Gly83Trp missense_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154915 c.1197A>G synonymous_variant 1.0
katG 2155366 p.Arg249Leu missense_variant 0.1
PPE35 2169718 p.Asn299Asp missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289804 c.-563T>C upstream_gene_variant 0.15
pncA 2289935 c.-694T>C upstream_gene_variant 0.11
thyA 3074494 c.-80_-24delCGCTGGGTTTGTTTGGCGGCGAGTCGCTGCGGCGGCTTCGCCGCGCTTGCGATCGCC upstream_gene_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339189 c.72C>T synonymous_variant 1.0
fbiD 3339273 c.156T>G synonymous_variant 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474080 p.Ala25Val missense_variant 0.14
fprA 3475252 p.Lys416* stop_gained 0.14
Rv3236c 3612665 p.Val151Ala missense_variant 0.14
fbiA 3641499 p.Met319Ile missense_variant 0.1
fbiB 3642034 p.Ala167Asp missense_variant 0.13
rpoA 3878285 p.Glu75Lys missense_variant 0.11
rpoA 3878352 c.156C>T synonymous_variant 0.13
rpoA 3878380 p.Leu43Pro missense_variant 0.12
clpC1 4038856 p.Lys617Gln missense_variant 0.14
embC 4241525 p.Gly555Cys missense_variant 0.15
embC 4241843 p.Leu661Ile missense_variant 0.11
embC 4242248 p.Ala796Thr missense_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4246188 p.Asn986Asp missense_variant 0.11
embB 4246574 p.Ala21Ser missense_variant 0.14
embB 4246745 p.Asp78Tyr missense_variant 0.11
embB 4247221 p.Leu236Phe missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0