TB-Profiler result

Run: ERR4818405
Summary

Run ID: ERR4818405

Sample name:

Date: 01-04-2023 15:32:15

Number of reads: 1107596

Percentage reads mapped: 99.55

Strain: lineage4.6.2.2

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
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.2 Euro-American T;LAM RD726 1.0
lineage4.6.2.2 Euro-American (Cameroon) LAM10-CAM RD726 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
gyrB 5941 c.702T>C synonymous_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491318 p.Pro179Gln missense_variant 0.12
mshA 576277 c.930C>T synonymous_variant 0.15
ccsA 620527 p.Ala213Thr missense_variant 0.11
rpoB 761766 p.Val654Leu missense_variant 0.11
rpoC 762680 c.-690C>A upstream_gene_variant 0.12
rpoC 766301 p.Cys978Gly missense_variant 0.12
rpoC 766789 c.3420G>A synonymous_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777374 p.Glu369Asp missense_variant 0.13
mmpL5 777530 c.951C>A synonymous_variant 0.12
mmpR5 778298 c.-692C>T upstream_gene_variant 1.0
mmpL5 778567 c.-87C>T upstream_gene_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302936 c.6G>A synonymous_variant 0.15
fbiC 1302960 c.30C>T synonymous_variant 0.2
fbiC 1303592 p.Arg221Leu missense_variant 0.11
fbiC 1303930 p.Pro334Ser missense_variant 0.11
fbiC 1304712 c.1786delG frameshift_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673792 p.Arg118Leu missense_variant 0.11
fabG1 1673981 c.544dupG frameshift_variant 0.17
inhA 1674459 p.Asn86Lys missense_variant 0.12
rpsA 1833452 c.-90C>T upstream_gene_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102262 p.Asp261His missense_variant 0.12
katG 2153898 p.Asp738Glu missense_variant 0.12
PPE35 2169974 c.639T>C synonymous_variant 0.15
PPE35 2170352 c.261C>A synonymous_variant 0.12
PPE35 2170357 p.Ala86Ser missense_variant 0.12
PPE35 2170359 p.Gln85Arg missense_variant 0.12
PPE35 2170363 p.Glu84Gln missense_variant 0.12
Rv1979c 2221746 c.1416_1418dupCCG disruptive_inframe_insertion 1.0
Rv1979c 2222288 p.Ala293Thr missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288732 c.510C>T synonymous_variant 0.12
pncA 2289156 p.Arg29Leu missense_variant 0.11
kasA 2517959 c.-156C>T upstream_gene_variant 0.18
kasA 2519103 p.Gly330Val missense_variant 0.22
eis 2714355 c.978C>A synonymous_variant 0.11
folC 2746775 p.Gln275Arg missense_variant 0.13
thyX 3067474 p.Pro158Ala missense_variant 1.0
Rv3083 3448567 p.His22Asp missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612448 c.669G>A synonymous_variant 0.11
Rv3236c 3612571 c.546C>T synonymous_variant 1.0
fbiA 3640495 c.-48T>C upstream_gene_variant 0.11
rpoA 3878193 c.315T>C synonymous_variant 0.11
rpoA 3878687 c.-180A>T upstream_gene_variant 0.17
clpC1 4039078 c.1626dupC frameshift_variant 0.13
panD 4043990 p.Ala98Thr missense_variant 0.11
panD 4044099 c.177_182dupGATCAC disruptive_inframe_insertion 0.11
embA 4242550 c.-683C>G upstream_gene_variant 1.0
embC 4242551 p.Arg897Trp missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244837 c.1605G>A synonymous_variant 0.29
aftB 4267272 p.Lys522Arg missense_variant 1.0
aftB 4267847 c.990C>T synonymous_variant 0.12
ethR 4326739 c.-810G>C upstream_gene_variant 1.0
ethA 4328004 c.-531C>T upstream_gene_variant 1.0
whiB6 4338432 c.90G>A synonymous_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0