TB-Profiler result

Run: ERR4819722
Summary

Run ID: ERR4819722

Sample name:

Date: 01-04-2023 16:16:08

Number of reads: 427042

Percentage reads mapped: 99.65

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 491327 p.Ala182Asp missense_variant 0.12
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576459 c.1117_1147delGCGGTGGGCGGGCTGCCCGTCGCGGTGCGCG frameshift_variant 0.18
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765211 c.1842G>A synonymous_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776030 c.2451G>A synonymous_variant 0.11
mmpL5 777699 p.Phe261Tyr missense_variant 0.17
mmpL5 777820 c.661C>T synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304442 c.1512T>C synonymous_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472342 n.497G>A non_coding_transcript_exon_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167865 c.2748G>C synonymous_variant 0.25
PPE35 2167868 c.2745A>C synonymous_variant 0.22
PPE35 2169578 c.1035T>G synonymous_variant 0.2
PPE35 2169761 p.Ile284Leu missense_variant 0.15
PPE35 2170454 c.159C>G synonymous_variant 0.14
PPE35 2170457 c.156G>C synonymous_variant 0.13
PPE35 2170460 c.153G>A synonymous_variant 0.13
PPE35 2170465 p.Ala50Ser missense_variant 0.12
PPE35 2170472 c.141G>A synonymous_variant 0.12
PPE35 2170528 p.Ser29Ala missense_variant 0.15
PPE35 2170529 c.84G>A synonymous_variant 0.15
PPE35 2170535 c.78G>C synonymous_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518288 c.174C>T synonymous_variant 0.17
thyA 3074648 c.-177T>G upstream_gene_variant 0.25
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449905 p.Lys468* stop_gained 0.1
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038770 c.1935C>T synonymous_variant 0.11
clpC1 4039645 p.His354Asp missense_variant 0.23
clpC1 4039654 p.Thr351Ser missense_variant 0.14
clpC1 4040345 c.360C>T synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embC 4242908 p.Phe1016Val missense_variant 0.27
embA 4245078 c.1849delG frameshift_variant 0.14
aftB 4267189 p.Ile550Phe missense_variant 0.12
ethA 4326083 p.Asp464Gly missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0