TB-Profiler result

Run: ERR11049965

Summary

Run ID: ERR11049965

Sample name:

Date: 02-04-2023 05:10:00

Number of reads: 3627500

Percentage reads mapped: 99.8

Strain: lineage4.6.2.2

Drug-resistance: Other


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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
gid 4408100 c.102delG frameshift_variant 1.0 streptomycin
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
gyrA 9647 c.2346C>G synonymous_variant 0.34
mshA 576106 c.759C>G synonymous_variant 0.15
mshA 576113 p.Arg256Gly missense_variant 0.2
mshA 576442 p.Cys365Trp missense_variant 0.19
mshA 576606 p.Ala420Gly missense_variant 0.26
mshA 576616 c.1269G>C synonymous_variant 0.36
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.39
mmpR5 778298 c.-692C>T upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416925 c.423A>C synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673553 p.Asp38Glu missense_variant 0.32
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102817 p.Leu76Val missense_variant 0.12
katG 2155389 c.723C>G synonymous_variant 1.0
PPE35 2170035 p.Val193Gly missense_variant 0.22
PPE35 2170037 c.576C>G synonymous_variant 0.24
PPE35 2170065 p.Ala183Gly missense_variant 0.19
Rv1979c 2221746 c.1416_1418dupCCG disruptive_inframe_insertion 0.77
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.32
Rv2752c 3064823 p.Val457Leu missense_variant 0.21
thyX 3067474 p.Pro158Ala missense_variant 0.99
fbiD 3339734 p.Ala206Gly missense_variant 0.44
fbiD 3339749 p.Val211Ala missense_variant 0.33
fbiD 3339751 p.Ala212Pro missense_variant 0.25
Rv3083 3448567 p.His22Asp missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474213 p.Lys69Asn missense_variant 0.12
Rv3236c 3612571 c.546C>T synonymous_variant 1.0
rpoA 3878597 c.-90G>C upstream_gene_variant 0.29
rpoA 3878641 c.-134C>G upstream_gene_variant 0.85
embC 4240409 p.Pro183Ala missense_variant 0.35
embA 4242550 c.-683C>G upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.3
embB 4247016 p.Ser168Trp missense_variant 0.5
embB 4247020 c.507C>G synonymous_variant 0.42
embB 4247033 p.Ser174Cys missense_variant 0.18
embB 4248328 c.1815G>C synonymous_variant 0.3
aftB 4267272 p.Lys522Arg missense_variant 1.0
ethR 4326739 c.-810G>C upstream_gene_variant 1.0
ethA 4328004 c.-531C>T upstream_gene_variant 1.0
whiB6 4338200 p.Asp108His missense_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0