TB-Profiler result

Run: ERR4818668
Summary

Run ID: ERR4818668

Sample name:

Date: 01-04-2023 15:41:16

Number of reads: 871473

Percentage reads mapped: 99.49

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 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7744 p.Glu148Val missense_variant 0.11
gyrA 8741 c.1440C>A synonymous_variant 0.14
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490649 c.-134C>T upstream_gene_variant 0.13
fgd1 491042 p.Ala87Asp missense_variant 0.12
fgd1 491259 c.477T>A synonymous_variant 0.12
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575422 c.75C>T synonymous_variant 0.15
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576221 p.Gly292Arg missense_variant 1.0
ccsA 619757 c.-134G>T upstream_gene_variant 0.15
rpoB 759620 c.-187A>C upstream_gene_variant 0.23
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766759 c.3390G>A synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303016 p.Val29Gly missense_variant 0.21
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1673697 c.-505G>A upstream_gene_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153947 p.Gln722Arg missense_variant 0.11
PPE35 2169956 c.657T>C synonymous_variant 0.12
PPE35 2169964 p.Leu217Val missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289926 c.-685A>G upstream_gene_variant 0.11
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
eis 2715532 c.-202_-201delCT upstream_gene_variant 0.1
folC 2746262 p.Leu446Arg missense_variant 0.12
folC 2747601 c.-3G>T upstream_gene_variant 0.15
ribD 2987099 c.261C>T synonymous_variant 0.14
thyX 3067585 p.Gly121Cys missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339533 p.Phe139Ser missense_variant 0.13
Rv3083 3449049 c.546C>G synonymous_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3613081 c.36C>T synonymous_variant 0.11
clpC1 4039682 c.1023C>T synonymous_variant 0.12
clpC1 4039691 c.1014G>C synonymous_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
aftB 4267922 c.915G>A synonymous_variant 0.15
aftB 4268669 p.Glu56Asp missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0