TB-Profiler result

Run: ERR11050546
Summary

Run ID: ERR11050546

Sample name:

Date: 03-04-2023 09:57:30

Number of reads: 3406895

Percentage reads mapped: 99.72

Strain: lineage4.4.1.1

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans 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 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575935 c.588G>T synonymous_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.19
mshA 576606 p.Ala420Gly missense_variant 0.22
mshA 576616 c.1269G>C synonymous_variant 0.29
rpoC 764367 p.Gly333Ala missense_variant 0.21
mmpL5 775626 p.Trp952Leu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.19
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 0.3
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2170065 p.Ala183Gly missense_variant 0.35
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.19
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087816 p.Cys333Gly missense_variant 0.14
fbiD 3339734 p.Ala206Gly missense_variant 0.43
fbiD 3339751 p.Ala212Pro missense_variant 0.21
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568428 c.252A>G synonymous_variant 0.3
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
alr 3841608 c.-188A>G upstream_gene_variant 1.0
rpoA 3878589 c.-82A>T upstream_gene_variant 0.15
rpoA 3878590 c.-83G>C upstream_gene_variant 0.18
rpoA 3878597 c.-90G>C upstream_gene_variant 0.2
rpoA 3878608 c.-101C>G upstream_gene_variant 0.4
rpoA 3878613 c.-106A>C upstream_gene_variant 0.5
rpoA 3878618 c.-111A>C upstream_gene_variant 0.6
rpoA 3878641 c.-134C>G upstream_gene_variant 0.89
clpC1 4040522 c.183T>C synonymous_variant 1.0
embC 4240409 p.Pro183Ala missense_variant 0.39
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.25
embB 4246529 p.Ser6Arg missense_variant 0.27
embB 4246584 p.Arg24Pro missense_variant 0.21
embB 4248328 c.1815G>C synonymous_variant 0.21
whiB6 4338595 c.-75delG upstream_gene_variant 1.0