TB-Profiler result

Run: ERR973458
Summary

Run ID: ERR973458

Sample name:

Date: 02-04-2023 12:03:07

Number of reads: 124385

Percentage reads mapped: 99.55

Strain: lineage4

Drug-resistance: RR-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
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
embB 4247429 p.Met306Val missense_variant 1.0 ethambutol
ethA 4327132 c.341delA frameshift_variant 0.75 ethionamide, ethionamide
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
mshA 575532 p.Thr62Ser missense_variant 0.5
mshA 576460 c.1118_1120delCGG disruptive_inframe_deletion 1.0
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765796 c.2427C>G synonymous_variant 0.33
rpoC 767111 p.Leu1248Met missense_variant 0.33
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304566 p.Phe546Val missense_variant 0.4
Rv1258c 1406350 p.Ile331Leu missense_variant 0.25
fabG1 1673346 c.-94C>G upstream_gene_variant 0.29
fabG1 1673349 c.-91G>C upstream_gene_variant 0.29
fabG1 1673357 c.-83G>A upstream_gene_variant 0.29
fabG1 1673359 c.-81T>C upstream_gene_variant 0.29
fabG1 1673361 c.-79C>G upstream_gene_variant 0.29
fabG1 1673380 c.-60C>G upstream_gene_variant 0.5
katG 2154869 p.Leu415Met missense_variant 1.0
katG 2155844 p.Trp90Arg missense_variant 1.0
PPE35 2169708 p.Thr302Asn missense_variant 0.4
PPE35 2169925 c.679_687delATCGGCAAC conservative_inframe_deletion 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289151 p.Ile31Phe missense_variant 1.0
ahpC 2726149 c.-44T>C upstream_gene_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086948 c.129G>A synonymous_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
panD 4044344 c.-63T>G upstream_gene_variant 0.5
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247978 p.Ile489Leu missense_variant 0.4
embB 4249734 p.Pro1074Leu missense_variant 1.0
aftB 4269324 c.-488C>T upstream_gene_variant 0.5
ubiA 4270004 c.-171G>T upstream_gene_variant 0.33
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407928 p.Glu92Ala missense_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0
gid 4408271 c.-69A>G upstream_gene_variant 0.67