TB-Profiler result

Run: SRR4037666
Summary

Run ID: SRR4037666

Sample name:

Date: 21-10-2023 11:55:32

Number of reads: 1873595

Percentage reads mapped: 99.64

Strain: lineage4.4.1.1;lineage2.2.1

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Rifampicin
Isoniazid
Ethambutol
Pyrazinamide
Streptomycin
Fluoroquinolones
Moxifloxacin
Ofloxacin
Levofloxacin
Ciprofloxacin
Aminoglycosides
Amikacin
Capreomycin
Kanamycin
Cycloserine
Ethionamide
Clofazimine
Para-aminosalicylic_acid
Delamanid
Bedaquiline
Linezolid
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage2 East-Asian Beijing RD105 0.22
lineage4 Euro-American LAM;T;S;X;H None 0.84
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.2
lineage4.4 Euro-American S;T None 0.79
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.15
lineage4.4.1 Euro-American (S-type) S;T None 0.81
lineage4.4.1.1 Euro-American S;Orphans None 0.81
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 9138 p.Gln613Glu missense_variant 0.91
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 0.23
ccsA 620625 p.Ile245Met missense_variant 0.26
rpoC 763031 c.-339T>C upstream_gene_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 0.21
mmpL5 777416 c.1065G>T synonymous_variant 0.77
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1673363 c.-839G>A upstream_gene_variant 0.74
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 0.67
katG 2154724 p.Arg463Leu missense_variant 0.21
PPE35 2168479 p.Thr712Pro missense_variant 0.86
PPE35 2169840 p.Gly258Asp missense_variant 0.77
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3066175 p.Pro6Arg missense_variant 0.76
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 0.83
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568779 c.-100T>C upstream_gene_variant 0.71
Rv3236c 3612665 p.Val151Ala missense_variant 0.59
Rv3236c 3612813 p.Thr102Ala missense_variant 0.31
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.23
gid 4407620 p.Tyr195His missense_variant 0.27