TB-Profiler result

Run: ERR279624
Summary

Run ID: ERR279624

Sample name:

Date: 31-03-2023 23:43:29

Number of reads: 1501286

Percentage reads mapped: 99.67

Strain: lineage4.3.2.1

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
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 0.99
lineage4.3 Euro-American (LAM) mainly-LAM None 0.96
lineage4.3.2 Euro-American (LAM) LAM3 None 0.97
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 0.97
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 0.94
gyrA 7222 c.-80C>T upstream_gene_variant 0.76
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 0.98
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 760407 p.Ser201Arg missense_variant 0.11
rpoB 760412 c.610_616delGCGTGGC frameshift_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778906 c.-426G>A upstream_gene_variant 0.25
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 0.75
rpsA 1833598 p.Ser19Arg missense_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154223 p.Gly630Asp missense_variant 0.12
PPE35 2167782 p.Ser944Tyr missense_variant 0.18
Rv1979c 2221946 p.Val407Met missense_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726417 p.Phe75Leu missense_variant 0.5
thyA 3073868 p.Thr202Ala missense_variant 0.88
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.97
rpoA 3878590 c.-83G>C upstream_gene_variant 0.21
clpC1 4038287 c.2418C>T synonymous_variant 0.91
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.98