TB-Profiler result

Run: ERR2653031
Summary

Run ID: ERR2653031

Sample name:

Date: 31-03-2023 22:27:33

Number of reads: 997708

Percentage reads mapped: 99.36

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) mainly-LAM None 0.98
lineage4.3.3 Euro-American (LAM) LAM;T RD115 0.97
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 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576396 p.Ser350Asn missense_variant 0.11
ccsA 619987 p.Ala33Pro missense_variant 0.12
ccsA 620057 p.Thr56Ile missense_variant 0.17
rpoC 763606 c.237C>T synonymous_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 767310 p.Asp1314Gly missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779431 p.Asn148Tyr missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305441 c.2511C>T synonymous_variant 0.11
fbiC 1305446 p.Gly839Asp missense_variant 0.12
Rv1258c 1406157 p.Ile395Thr missense_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156061 p.Ser17Arg missense_variant 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
eis 2715153 c.180G>T synonymous_variant 0.12
pepQ 2860053 c.366G>C synonymous_variant 0.1
thyA 3073868 p.Thr202Ala missense_variant 0.95
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086987 p.Gln56His missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3613292 c.-176T>A upstream_gene_variant 0.11
fbiB 3642203 c.669C>T synonymous_variant 0.12
alr 3841026 p.Val132Glu missense_variant 0.15
rpoA 3878630 c.-123G>C upstream_gene_variant 0.21
ddn 3986766 c.-78G>A upstream_gene_variant 0.11
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4242182 p.Ala774Ser missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244602 p.Ala457Val missense_variant 0.12
embA 4246444 p.Asp1071Gly missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.92