TB-Profiler result

Run: ERR8774202
Summary

Run ID: ERR8774202

Sample name:

Date: 02-04-2023 08:25:14

Number of reads: 484041

Percentage reads mapped: 99.73

Strain: lineage4.3

Drug-resistance: MDR-TB

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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
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
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
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 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 776500 p.Gly661Trp missense_variant 0.67
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472633 n.788C>A non_coding_transcript_exon_variant 0.12
rrs 1472641 n.796C>A non_coding_transcript_exon_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.75
PPE35 2170053 p.Thr187Ser missense_variant 0.72
PPE35 2170264 p.Leu117Ile missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518975 c.861C>T synonymous_variant 0.33
eis 2715422 c.-90G>T upstream_gene_variant 0.12
folC 2746832 p.Val256Gly missense_variant 0.23
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087528 p.Gly237Trp missense_variant 0.2
ald 3087634 p.Gly272Val missense_variant 0.33
ald 3087807 c.988C>A synonymous_variant 0.29
fbiD 3339580 p.Gly155Cys missense_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640731 p.Asp63Glu missense_variant 0.29
fbiB 3642597 p.Asp355Asn missense_variant 0.18
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4040639 p.Met22Ile missense_variant 0.22
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 1.0