TB-Profiler result

Run: ERR1193673
Summary

Run ID: ERR1193673

Sample name:

Date: 31-03-2023 12:20:52

Number of reads: 471367

Percentage reads mapped: 99.65

Strain: lineage4.3.3

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 0.99
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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
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 5214 c.-26C>G upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7505 c.204C>A synonymous_variant 0.11
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775775 c.2706G>A synonymous_variant 0.1
mmpS5 778630 p.Leu92Phe missense_variant 0.12
mmpS5 778632 c.267_273delGCTCACC frameshift_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303540 p.Leu204Ile missense_variant 0.13
fbiC 1304338 p.Phe470Leu missense_variant 0.2
Rv1258c 1407514 c.-174G>A upstream_gene_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
ahpC 2726350 p.Trp53Leu missense_variant 0.18
ribD 2986827 c.-12G>A upstream_gene_variant 1.0
Rv2752c 3067135 c.-944C>T upstream_gene_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
thyA 3074645 c.-174T>G upstream_gene_variant 0.33
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339741 c.624G>T synonymous_variant 0.1
fbiD 3339744 c.627A>C synonymous_variant 0.1
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3877515 c.993G>A synonymous_variant 0.1
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4040894 c.-258_-191delCAGGCGAAAGCCTGGGCGCCGGTACTTTGCCGCGTTCGCTGGCGGCGAACCGATGGCCGCTCGGCGCC upstream_gene_variant 0.22
embC 4241515 c.1655delT frameshift_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244996 c.1764C>T synonymous_variant 0.22
embA 4245330 p.Gly700Ser missense_variant 0.12
embB 4245782 c.-732C>A upstream_gene_variant 0.2
embB 4246544 p.Thr11Pro missense_variant 0.18
embB 4246548 p.Pro12Gln missense_variant 0.12
embB 4246556 p.Ala15Pro missense_variant 0.13
embB 4246563 p.Leu17Trp missense_variant 0.13
embB 4246567 c.54G>T synonymous_variant 0.13
aftB 4268374 p.Met155Leu missense_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407720 c.483C>G synonymous_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0