TB-Profiler result

Run: ERR4812639
Summary

Run ID: ERR4812639

Sample name:

Date: 01-04-2023 12:12:48

Number of reads: 694417

Percentage reads mapped: 99.48

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 0.96
lineage4.1.2 Euro-American T;H None 0.92
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.92
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 0.25
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 0.9
mshA 575679 p.Asn111Ser missense_variant 0.87
mshA 576111 p.Ala255Gly missense_variant 0.31
rpoB 760115 c.309C>T synonymous_variant 0.86
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775677 p.Lys935Arg missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304364 c.1435delC frameshift_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155149 p.Trp321Phe missense_variant 0.91
katG 2155664 p.Pro150Thr missense_variant 0.29
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 0.84
kasA 2518919 p.Gly269Ser missense_variant 0.2
ald 3086650 c.-170C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612100 c.1017C>A synonymous_variant 0.11
embC 4240541 p.Thr227Ala missense_variant 0.73
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.93
embA 4245116 c.1884C>A synonymous_variant 0.12
embB 4246584 p.Arg24Pro missense_variant 0.38
embB 4248630 p.Pro706Gln missense_variant 0.2
embB 4248691 c.2178C>A synonymous_variant 0.13
ethA 4326350 p.Ser375Phe missense_variant 0.15
ethA 4327175 p.Phe100Ser missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407768 p.Leu145Phe missense_variant 0.14