TB-Profiler result

Run: ERR4812867
Summary

Run ID: ERR4812867

Sample name:

Date: 01-04-2023 12:23:28

Number of reads: 302678

Percentage reads mapped: 99.26

Strain: lineage4

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
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 8040 p.Gly247Ser missense_variant 1.0
gyrA 8124 p.Pro275Ser missense_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9750 p.Arg817Cys missense_variant 0.25
rpoB 759778 c.-29G>A upstream_gene_variant 0.12
rpoB 762277 p.Arg824His missense_variant 0.33
rpoC 764896 c.1527C>T synonymous_variant 0.25
rpoC 764981 p.Gly538Cys missense_variant 0.2
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765102 p.Arg578Gln missense_variant 0.25
rpoC 765516 p.Leu716His missense_variant 0.2
rpoC 765853 p.Lys828Asn missense_variant 1.0
rpoC 767164 c.3795C>T synonymous_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775921 p.Leu854Met missense_variant 0.22
mmpR5 779275 p.Arg96Trp missense_variant 0.67
mmpS5 779613 c.-708C>T upstream_gene_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781589 p.Lys10Asn missense_variant 0.13
fbiC 1303725 p.Glu265Asp missense_variant 0.14
fbiC 1303807 p.Gln293Lys missense_variant 0.15
Rv1258c 1406740 p.His201Tyr missense_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1673715 c.-487C>T upstream_gene_variant 0.14
fabG1 1673732 p.Met98Thr missense_variant 0.14
inhA 1674117 c.-85C>T upstream_gene_variant 0.29
inhA 1674505 p.Gly102Arg missense_variant 0.29
inhA 1674987 c.786C>A synonymous_variant 0.5
rpsA 1834353 p.Arg271Gln missense_variant 0.13
ndh 2102636 p.Pro136Leu missense_variant 0.17
ndh 2103182 c.-140C>A upstream_gene_variant 0.33
ndh 2103233 c.-191G>A upstream_gene_variant 0.29
katG 2154098 p.Pro672Thr missense_variant 0.14
katG 2154670 p.Ser481Leu missense_variant 0.22
PPE35 2167818 p.Gly932Asp missense_variant 0.11
Rv1979c 2222694 c.471G>T synonymous_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289732 c.-491C>T upstream_gene_variant 0.25
pncA 2289814 c.-573G>T upstream_gene_variant 0.22
pncA 2289894 c.-653G>A upstream_gene_variant 0.22
kasA 2518919 p.Gly269Ser missense_variant 1.0
eis 2715219 c.114C>T synonymous_variant 0.4
pepQ 2859450 c.969C>T synonymous_variant 0.22
pepQ 2860489 c.-71G>T upstream_gene_variant 0.2
Rv2752c 3065251 p.Ala314Glu missense_variant 0.15
Rv2752c 3065824 p.Pro123Leu missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086868 p.Ala17Ser missense_variant 0.2
Rv3083 3448576 p.Ala25Ser missense_variant 0.22
fprA 3474689 p.Ala228Glu missense_variant 0.5
fbiA 3640501 c.-42C>T upstream_gene_variant 0.17
fbiA 3641231 p.Arg230His missense_variant 0.67
fbiB 3641813 c.279G>A synonymous_variant 1.0
alr 3840835 p.His196Asn missense_variant 0.25
alr 3841444 c.-24G>A upstream_gene_variant 0.29
rpoA 3878051 p.Arg153Trp missense_variant 0.22
ddn 3987101 c.258G>A synonymous_variant 0.29
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039136 p.Asp523Glu missense_variant 0.25
clpC1 4040495 c.210C>G synonymous_variant 0.18
embA 4246263 p.His1011Asn missense_variant 0.18
embB 4246576 c.63G>T synonymous_variant 0.67
embB 4248345 p.Thr611Met missense_variant 0.67
ethA 4326471 p.Ala335Ser missense_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0