TB-Profiler result

Run: SRR6650109

Summary

Run ID: SRR6650109

Sample name:

Date: 04-04-2023 15:16:25

Number of reads: 1313857

Percentage reads mapped: 99.73

Strain: lineage4.3.4.2

Drug-resistance: HR-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
lineage4.3 Euro-American (LAM) mainly-LAM None 0.99
lineage4.3.4 Euro-American (LAM) LAM RD174 0.99
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 0.99
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 2155193 p.Gly307Arg missense_variant 0.15 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7788 p.Pro163Ser missense_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 759938 c.132T>A synonymous_variant 0.11
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
rrl 1476611 n.2954T>C non_coding_transcript_exon_variant 0.14
inhA 1674616 p.Asn139Asp missense_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156360 c.-249T>G upstream_gene_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3065293 p.Val300Ala missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
fbiB 3642236 c.702G>A synonymous_variant 0.12
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4239763 c.-100C>T upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246679 p.Leu56Phe missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408083 p.Glu40Asp missense_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0