TB-Profiler result

Run: ERR4827457
Summary

Run ID: ERR4827457

Sample name:

Date: 01-04-2023 18:04:45

Number of reads: 1967246

Percentage reads mapped: 99.41

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 0.99
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7760 p.Ile153Met missense_variant 0.97
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575467 c.120A>G synonymous_variant 0.15
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.2
mshA 576280 c.933A>T synonymous_variant 0.33
ccsA 619751 c.-140G>A upstream_gene_variant 0.18
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_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
fabG1 1673380 c.-60C>G upstream_gene_variant 0.27
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167868 c.2745A>C synonymous_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.36
PPE35 2170053 p.Thr187Ser missense_variant 0.35
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518692 p.Ala193Gly missense_variant 0.12
Rv2752c 3064848 p.Phe448Leu missense_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568418 c.250_261delGGACGTCCGCGC conservative_inframe_deletion 0.12
embC 4240238 p.Ala126Pro missense_variant 0.17
embC 4242071 p.Gly737Ser missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embC 4243121 p.Ser1087Gly missense_variant 0.11
embB 4246519 c.6A>G synonymous_variant 0.12
embB 4246544 p.Thr11Pro missense_variant 0.5
embB 4246548 p.Pro12Gln missense_variant 0.33
embB 4246555 c.42G>C synonymous_variant 0.45
embB 4246556 p.Ala15Pro missense_variant 0.45
embB 4246563 p.Leu17Trp missense_variant 0.44
embB 4246567 c.54G>T synonymous_variant 0.2
embB 4247026 c.513G>C synonymous_variant 0.3
embB 4249770 p.Ser1086Asn missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0