TB-Profiler result

Run: ERR4828888
Summary

Run ID: ERR4828888

Sample name:

Date: 01-04-2023 19:09:05

Number of reads: 1013852

Percentage reads mapped: 99.69

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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576089 p.Ala254Gly missense_variant 0.27
ccsA 620250 c.360C>G synonymous_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775973 c.2508G>A synonymous_variant 0.12
mmpR5 778403 c.-587T>C upstream_gene_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406593 p.Tyr250Asn missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472104 n.260delT non_coding_transcript_exon_variant 0.15
rrl 1476495 n.2838A>G non_coding_transcript_exon_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102214 p.Ser277Thr missense_variant 0.11
PPE35 2167800 p.Gly938Val missense_variant 0.15
PPE35 2168512 p.Gly701Ser missense_variant 0.2
PPE35 2168946 p.Pro556Leu missense_variant 1.0
PPE35 2169281 c.1332T>G synonymous_variant 0.2
PPE35 2169287 c.1326T>C synonymous_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
Rv2752c 3064655 p.Ala513Ser missense_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087817 p.Cys333Phe missense_variant 0.21
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568427 p.Arg85Gly missense_variant 0.25
whiB7 3568428 c.252A>G synonymous_variant 0.25
whiB7 3568586 p.Thr32Ala missense_variant 0.11
whiB7 3568588 p.Asp31Val missense_variant 0.11
rpoA 3878583 c.-76C>A upstream_gene_variant 1.0
clpC1 4038740 c.1965G>T synonymous_variant 0.14
clpC1 4039829 p.Leu292Ile missense_variant 0.12
clpC1 4040471 c.234T>A synonymous_variant 0.12
embC 4239713 c.-150G>A upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
ethA 4327543 c.-70C>T upstream_gene_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0