TB-Profiler result

Run: ERR4818621

Summary

Run ID: ERR4818621

Sample name:

Date: 01-04-2023 15:39:39

Number of reads: 789456

Percentage reads mapped: 99.83

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 None 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 6574 c.-728C>T upstream_gene_variant 0.12
mshA 576744 p.Val466Gly missense_variant 0.25
mshA 576748 c.1401C>A synonymous_variant 0.27
rpoB 759620 c.-187A>C upstream_gene_variant 0.33
rpoB 761057 c.1251G>T synonymous_variant 0.1
mmpL5 776788 p.Glu565* stop_gained 0.12
fbiC 1304976 c.2046G>A synonymous_variant 0.2
atpE 1461087 p.Leu15Met missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472955 n.1110C>A non_coding_transcript_exon_variant 0.14
PPE35 2168651 c.1962G>A synonymous_variant 0.18
PPE35 2169502 p.Met371Leu missense_variant 0.1
PPE35 2169714 p.Gly300Val missense_variant 0.22
Rv1979c 2222726 p.Val147Leu missense_variant 0.1
Rv1979c 2223300 c.-136G>A upstream_gene_variant 0.11
Rv1979c 2223355 c.-191G>T upstream_gene_variant 0.12
ahpC 2726263 p.Ser24Phe missense_variant 0.15
thyA 3073968 c.504C>T synonymous_variant 0.12
Rv3083 3449277 p.Cys258* stop_gained 0.12
rpoA 3878522 c.-15G>T upstream_gene_variant 0.14
embA 4245035 c.1803C>A synonymous_variant 0.1
embB 4246616 p.Leu35Met missense_variant 0.14
embB 4248697 c.2184A>G synonymous_variant 0.11
aftB 4268578 p.Ala87Ser missense_variant 0.12