TB-Profiler result

Run: ERR4815975
Summary

Run ID: ERR4815975

Sample name:

Date: 01-04-2023 14:10:15

Number of reads: 548709

Percentage reads mapped: 99.31

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 8382 p.Leu361Met missense_variant 0.15
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
fgd1 491734 p.Arg318Ser missense_variant 0.13
mshA 575679 p.Asn111Ser missense_variant 1.0
ccsA 619831 c.-60T>G upstream_gene_variant 0.25
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 777281 c.1199delT frameshift_variant 0.17
mmpL5 777538 c.943C>T synonymous_variant 0.33
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781589 p.Lys10Asn missense_variant 0.14
fbiC 1303016 p.Val29Gly missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673467 p.Lys10Glu missense_variant 0.12
fabG1 1673855 p.Gly139Val missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918636 p.Pro233Thr missense_variant 0.15
ndh 2102256 p.Asp263Asn missense_variant 0.17
ndh 2102268 p.Val259Ile missense_variant 0.13
ndh 2102506 c.537C>T synonymous_variant 1.0
PPE35 2169934 p.Ile227Phe missense_variant 0.14
PPE35 2170256 c.357G>T synonymous_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289330 c.-89G>A upstream_gene_variant 0.1
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518803 p.Phe230Ser missense_variant 0.15
ahpC 2726341 p.Val50Gly missense_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448982 p.Gly160Val missense_variant 0.25
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3641127 c.-408T>C upstream_gene_variant 0.11
rpoA 3878237 p.Glu91Lys missense_variant 0.12
clpC1 4038773 p.Asp644Glu missense_variant 0.12
clpC1 4038776 p.Glu643Asp missense_variant 0.12
clpC1 4038782 c.1923G>C synonymous_variant 0.12
clpC1 4040453 c.252C>A synonymous_variant 0.15
clpC1 4040708 c.-4A>G upstream_gene_variant 0.33
embC 4241225 p.Pro455Ser missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embC 4242881 p.Pro1007Thr missense_variant 0.12
embA 4245786 p.Ala852Thr missense_variant 1.0
embA 4246015 p.Pro928Leu missense_variant 0.14
embB 4246040 c.-474C>T upstream_gene_variant 0.13
embB 4247260 c.747C>A synonymous_variant 0.13
embB 4247547 p.Asp345Gly missense_variant 0.18
embB 4247551 c.1038C>T synonymous_variant 0.18
embB 4249323 p.Ala937Glu missense_variant 0.29
aftB 4267520 c.1317T>C synonymous_variant 0.17
aftB 4268642 p.Tyr65* stop_gained 0.5
whiB6 4338595 c.-75delG upstream_gene_variant 1.0