TB-Profiler result

Run: ERR4829606
Summary

Run ID: ERR4829606

Sample name:

Date: 01-04-2023 19:34:58

Number of reads: 2599044

Percentage reads mapped: 89.7

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 0.98
lineage4.1.2 Euro-American T;H None 0.99
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 7490 c.189C>G synonymous_variant 0.13
gyrA 7502 c.201C>T synonymous_variant 0.13
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7697 c.396C>G synonymous_variant 0.13
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 0.98
mshA 575679 p.Asn111Ser missense_variant 0.97
mshA 576108 p.Ala254Gly missense_variant 0.31
mshA 576482 p.Val379Leu missense_variant 0.15
rpoB 760115 c.309C>T synonymous_variant 0.98
rpoB 760892 c.1086C>T synonymous_variant 0.14
rpoB 760916 c.1110C>G synonymous_variant 0.14
rpoB 760919 c.1113C>G synonymous_variant 0.14
rpoB 760925 c.1119T>C synonymous_variant 0.14
rpoB 760928 c.1122G>C synonymous_variant 0.13
rpoB 760931 c.1125C>G synonymous_variant 0.13
rpoB 761180 c.1374A>C synonymous_variant 0.14
rpoB 761240 c.1434C>T synonymous_variant 0.14
rpoB 761282 c.1476C>G synonymous_variant 0.12
rpoB 761636 c.1830G>T synonymous_variant 0.13
rpoB 761645 c.1839C>A synonymous_variant 0.13
rpoB 761648 c.1842T>C synonymous_variant 0.14
rpoC 762410 c.-960T>C upstream_gene_variant 0.13
rpoC 762416 c.-954A>G upstream_gene_variant 0.14
rpoC 762431 c.-939C>T upstream_gene_variant 0.17
rpoC 762449 c.-921C>A upstream_gene_variant 0.14
rpoC 762929 c.-441G>T upstream_gene_variant 0.13
rpoC 762962 c.-408C>T upstream_gene_variant 0.14
rpoC 762983 c.-387C>G upstream_gene_variant 0.13
rpoC 762995 c.-375G>T upstream_gene_variant 0.14
rpoC 763031 c.-339T>C upstream_gene_variant 0.16
rpoC 763034 c.-336C>G upstream_gene_variant 0.15
rpoC 763040 c.-330C>G upstream_gene_variant 0.15
rpoC 763050 c.-320C>T upstream_gene_variant 0.14
rpoC 763070 c.-300T>C upstream_gene_variant 0.13
rpoC 763082 c.-288C>T upstream_gene_variant 0.15
rpoC 763085 c.-285C>G upstream_gene_variant 0.14
rpoC 763703 c.334_336delTCGinsAGC synonymous_variant 0.15
rpoC 763709 c.340C>T synonymous_variant 0.15
rpoC 763714 c.345G>C synonymous_variant 0.15
rpoC 763726 c.357C>T synonymous_variant 0.18
rpoC 763732 c.363C>G synonymous_variant 0.16
rpoC 763741 c.372C>T synonymous_variant 0.19
rpoC 763744 c.375G>C synonymous_variant 0.16
rpoC 763765 c.396T>G synonymous_variant 0.19
rpoC 763771 c.402C>T synonymous_variant 0.22
rpoC 763780 c.411C>G synonymous_variant 0.21
rpoC 763792 p.Glu141Asp missense_variant 0.2
rpoC 763801 c.432C>G synonymous_variant 0.21
rpoC 763807 c.438T>C synonymous_variant 0.21
rpoC 763836 p.Ala156Val missense_variant 0.19
rpoC 763888 c.519G>C synonymous_variant 0.16
rpoC 763891 c.522G>C synonymous_variant 0.17
rpoC 763894 c.525A>G synonymous_variant 0.16
rpoC 763936 c.567C>G synonymous_variant 0.15
rpoC 763939 c.570G>A synonymous_variant 0.15
rpoC 763951 c.582G>A synonymous_variant 0.15
rpoC 763963 c.594C>G synonymous_variant 0.15
rpoC 764167 c.798G>A synonymous_variant 0.13
rpoC 764188 c.819A>G synonymous_variant 0.15
rpoC 764215 c.846A>C synonymous_variant 0.14
rpoC 764218 c.849C>T synonymous_variant 0.14
rpoC 764242 c.873C>T synonymous_variant 0.17
rpoC 764245 c.876C>A synonymous_variant 0.15
rpoC 764246 c.877_879delCTCinsTTG synonymous_variant 0.15
rpoC 764263 c.894G>C synonymous_variant 0.17
rpoC 764266 c.897T>C synonymous_variant 0.18
rpoC 764278 c.909A>G synonymous_variant 0.19
rpoC 764293 c.924G>C synonymous_variant 0.19
rpoC 764317 c.948C>G synonymous_variant 0.17
rpoC 764320 c.951C>G synonymous_variant 0.16
rpoC 764389 p.Leu340Phe missense_variant 0.12
rpoC 764405 c.1036_1038delAGGinsCGC synonymous_variant 0.14
rpoC 764428 c.1059G>C synonymous_variant 0.14
rpoC 764431 c.1062G>C synonymous_variant 0.14
rpoC 764434 c.1065A>G synonymous_variant 0.14
rpoC 764461 c.1092A>G synonymous_variant 0.14
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765622 p.Glu751Asp missense_variant 0.13
rpoC 765883 c.2514C>G synonymous_variant 0.16
rpoC 765886 c.2517C>G synonymous_variant 0.16
rpoC 765892 c.2523T>C synonymous_variant 0.16
rpoC 765934 c.2565C>T synonymous_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407489 c.-149G>A upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674619 p.Pro140Ser missense_variant 0.14
inhA 1674627 c.426T>C synonymous_variant 0.13
rpsA 1833847 c.306C>G synonymous_variant 0.13
rpsA 1833856 c.315A>G synonymous_variant 0.13
rpsA 1833949 c.408T>C synonymous_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
Rv2752c 3066299 c.-108C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3877758 c.750G>C synonymous_variant 0.16
rpoA 3877764 c.744C>G synonymous_variant 0.17
rpoA 3877770 c.738A>G synonymous_variant 0.16
rpoA 3877776 c.732T>C synonymous_variant 0.16
rpoA 3877782 c.726T>C synonymous_variant 0.15
rpoA 3877839 c.669G>C synonymous_variant 0.13
rpoA 3877851 c.657C>T synonymous_variant 0.13
rpoA 3877875 c.633T>C synonymous_variant 0.13
rpoA 3878346 c.162T>C synonymous_variant 0.13
rpoA 3878665 c.-158A>G upstream_gene_variant 0.2
rpoA 3878685 c.-178C>T upstream_gene_variant 0.18
rpoA 3878698 c.-191A>G upstream_gene_variant 0.13
clpC1 4039022 c.1683A>G synonymous_variant 0.14
clpC1 4039025 c.1680C>G synonymous_variant 0.13
clpC1 4040000 c.705C>T synonymous_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.35
whiB6 4338595 c.-75delG upstream_gene_variant 1.0