TB-Profiler result

Run: ERR11050096
Summary

Run ID: ERR11050096

Sample name:

Date: 02-04-2023 11:34:30

Number of reads: 3513717

Percentage reads mapped: 99.46

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 0.99
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9647 c.2346C>G synonymous_variant 0.19
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.25
mshA 576113 p.Arg256Gly missense_variant 0.4
mshA 576119 p.Ala258Pro missense_variant 0.25
mshA 576442 p.Cys365Trp missense_variant 0.21
mshA 576456 p.Val370Gly missense_variant 0.25
mshA 576606 p.Ala420Gly missense_variant 0.24
mshA 576616 c.1269G>C synonymous_variant 0.12
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 764367 p.Gly333Ala missense_variant 0.29
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673553 p.Asp38Glu missense_variant 0.41
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102817 p.Leu76Val missense_variant 0.16
PPE35 2170065 p.Ala183Gly missense_variant 0.19
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.31
Rv2752c 3064823 p.Val457Leu missense_variant 0.18
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087816 p.Cys333Gly missense_variant 0.23
fbiD 3339751 p.Ala212Pro missense_variant 0.5
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568433 p.Arg83Gly missense_variant 0.27
rpoA 3878580 c.-73A>C upstream_gene_variant 0.38
rpoA 3878641 c.-134C>G upstream_gene_variant 1.0
panD 4043993 p.Arg97Trp missense_variant 1.0
embC 4240409 p.Pro183Ala missense_variant 0.41
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.5
embB 4246529 p.Ser6Arg missense_variant 0.22
embB 4246584 p.Arg24Pro missense_variant 0.18
embB 4247016 p.Ser168Trp missense_variant 0.29
embB 4247020 c.507C>G synonymous_variant 0.25
embB 4248328 c.1815G>C synonymous_variant 0.27
aftB 4267400 c.1437G>C synonymous_variant 0.26
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338598 c.-77G>A upstream_gene_variant 1.0