TB-Profiler result

Run: SRR6896308

Summary

Run ID: SRR6896308

Sample name:

Date: 04-04-2023 18:02:00

Number of reads: 412590

Percentage reads mapped: 99.61

Strain: lineage4.3.2.1

Drug-resistance: Sensitive


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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 1.0
lineage4.3.2 Euro-American (LAM) LAM3 None 1.0
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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
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 5520 p.Pro94Leu missense_variant 1.0
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
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 490756 c.-27T>G upstream_gene_variant 0.21
fgd1 490860 c.78C>T synonymous_variant 0.18
rpoB 761709 p.Val635Ile missense_variant 0.2
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775818 p.Phe888Ser missense_variant 0.1
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416912 p.Arg146Cys missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 0.97
fabG1 1674068 p.Arg210Leu missense_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155112 p.Glu334Lys missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714292 c.1041C>T synonymous_variant 0.1
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
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4241281 c.1419G>C synonymous_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244104 p.Ala291Asp missense_variant 0.17
embA 4246157 c.2926_2927dupCC frameshift_variant 0.29
aftB 4268183 c.654A>T synonymous_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0