TB-Profiler result

Run: ERR2516145
Summary

Run ID: ERR2516145

Sample name:

Date: 31-03-2023 21:20:14

Number of reads: 1186929

Percentage reads mapped: 99.32

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 0.99
lineage4.1.2 Euro-American T;H None 0.97
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
rpoB 760115 c.309C>T synonymous_variant 0.96
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766973 p.Ala1202Thr missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 778738 c.167dupT frameshift_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406943 c.397_398insGC frameshift_variant 0.15
Rv1258c 1406946 p.Ala132Gly missense_variant 0.15
Rv1258c 1406948 c.391_392delGC frameshift_variant 0.16
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673349 c.-91G>C upstream_gene_variant 0.12
fabG1 1673380 c.-60C>G upstream_gene_variant 0.28
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918588 p.Glu217Gln missense_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.15
PPE35 2170053 p.Thr187Ser missense_variant 0.16
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
eis 2714760 c.573A>G synonymous_variant 1.0
folC 2746226 p.Gly458Val missense_variant 0.12
folC 2746805 p.Val265Ala missense_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642226 p.Gln231Pro missense_variant 0.17
fbiB 3642229 p.Leu232Gln missense_variant 0.18
fbiB 3642232 p.Leu233Gln missense_variant 0.17
fbiB 3642234 p.Arg234Leu missense_variant 0.17
alr 3841546 c.-126C>A upstream_gene_variant 0.14
clpC1 4039003 p.Asn568Asp missense_variant 0.24
clpC1 4039022 c.1683A>G synonymous_variant 0.11
clpC1 4039031 c.1674T>C synonymous_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.13
embB 4246548 p.Pro12Gln missense_variant 0.15
embB 4246555 c.42G>C synonymous_variant 0.16
embB 4246556 p.Ala15Pro missense_variant 0.17
embB 4246966 c.453C>A synonymous_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0