TB-Profiler result

Run: ERR4024811
Summary

Run ID: ERR4024811

Sample name:

Date: 01-04-2023 04:09:33

Number of reads: 1673503

Percentage reads mapped: 99.62

Strain: lineage4.3;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
lineage4.3 Euro-American (LAM) mainly-LAM None 0.3
lineage4.1 Euro-American T;X;H None 0.68
lineage4.1.2 Euro-American T;H None 0.65
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.66
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 0.98
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 0.98
fgd1 491591 p.Lys270Met missense_variant 0.81
mshA 575679 p.Asn111Ser missense_variant 0.65
rpoB 760115 c.309C>T synonymous_variant 0.64
rpoC 764995 c.1626C>G synonymous_variant 0.35
rpoC 765150 p.Gly594Glu missense_variant 0.76
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168703 p.Gly637Val missense_variant 0.31
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 0.72
thyA 3073868 p.Thr202Ala missense_variant 0.4
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339040 c.-78T>C upstream_gene_variant 0.67
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640393 c.-150A>C upstream_gene_variant 0.69
rpoA 3878601 c.-95delG upstream_gene_variant 0.38
rpoA 3878613 c.-113_-107delCAACCCA upstream_gene_variant 0.37
clpC1 4038287 c.2418C>T synonymous_variant 0.32
clpC1 4038405 p.Val767Ala missense_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.66
embB 4248043 c.1530C>G synonymous_variant 0.66
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.24
gid 4408312 c.-110C>T upstream_gene_variant 0.69