TB-Profiler result

Run: ERR2517461
Summary

Run ID: ERR2517461

Sample name:

Date: 31-03-2023 22:13:35

Number of reads: 2839265

Percentage reads mapped: 99.53

Strain: lineage4.6.1.2

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
lineage4.6.1 Euro-American (Uganda) T2 RD724 1.0
lineage4.6.1.2 Euro-American T2 RD724 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 7539 p.Thr80Ala missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7837 p.Gly179Ala missense_variant 0.24
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9323 c.2022C>A synonymous_variant 0.13
fgd1 490726 c.-57G>A upstream_gene_variant 0.12
rpoC 764352 p.Val328Ala missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416410 p.Leu313Arg missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 0.89
fabG1 1673346 c.-94C>G upstream_gene_variant 0.14
fabG1 1673349 c.-91G>C upstream_gene_variant 0.16
fabG1 1673380 c.-60C>G upstream_gene_variant 0.21
inhA 1674465 c.264C>T synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918124 p.Trp62Leu missense_variant 0.12
PPE35 2169407 c.1206C>T synonymous_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.43
PPE35 2170053 p.Thr187Ser missense_variant 0.43
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518606 c.492G>C synonymous_variant 0.38
kasA 2518609 p.Met165Ile missense_variant 0.38
eis 2714477 p.Arg286Ser missense_variant 0.17
eis 2714493 c.840C>A synonymous_variant 0.17
folC 2746453 c.1146G>T synonymous_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475367 p.Gly454Val missense_variant 0.17
fbiB 3642307 p.Leu258Arg missense_variant 0.17
alr 3840502 p.Leu307Val missense_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243554 p.Arg108Ser missense_variant 0.15
embA 4243709 c.477C>T synonymous_variant 1.0
embA 4245055 p.Thr608Asn missense_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.5
embB 4246548 p.Pro12Gln missense_variant 0.46
embB 4246555 c.42G>C synonymous_variant 0.5
embB 4246556 p.Ala15Pro missense_variant 0.5
embB 4246563 p.Leu17Trp missense_variant 0.54
embB 4246567 c.54G>T synonymous_variant 0.5
embB 4247571 p.Pro353Gln missense_variant 0.22
embB 4247576 c.1063_1064insA frameshift_variant 0.25
embB 4249662 p.Ala1050Val missense_variant 0.33
aftB 4268426 c.411C>A synonymous_variant 0.15
ethA 4327547 c.-74C>A upstream_gene_variant 0.11
ethA 4327998 c.-525G>C upstream_gene_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338635 c.-114A>C upstream_gene_variant 1.0
gid 4407986 p.Gly73Trp missense_variant 0.12
gid 4408390 c.-188C>A upstream_gene_variant 0.17