TB-Profiler result

Run: ERR2652963
Summary

Run ID: ERR2652963

Sample name:

Date: 31-03-2023 22:25:18

Number of reads: 589128

Percentage reads mapped: 99.7

Strain: lineage4.4.1.1

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans None 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 7326 p.Asp9Asn missense_variant 0.15
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 619856 c.-35G>A upstream_gene_variant 0.4
rpoB 761593 p.Ala596Asp missense_variant 0.12
rpoB 761822 c.2016C>G synonymous_variant 0.14
rpoC 764179 c.810C>T synonymous_variant 0.18
rpoC 764254 c.885G>A synonymous_variant 0.18
rpoC 765344 p.Gly659Ser missense_variant 0.11
rpoC 765532 p.Phe721Leu missense_variant 0.11
rpoC 766123 c.2754C>A synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777315 p.Trp389* stop_gained 0.18
mmpL5 777569 c.912C>T synonymous_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406794 c.547T>C synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673975 p.Asn179Ser missense_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2167898 c.2715G>A synonymous_variant 0.2
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2170676 c.-64A>G upstream_gene_variant 0.11
Rv1979c 2222234 p.Ser311Pro missense_variant 0.15
Rv1979c 2222780 p.Asp129Asn missense_variant 0.17
Rv1979c 2223056 p.Gly37Cys missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289293 c.-52C>T upstream_gene_variant 0.14
eis 2715026 p.Glu103* stop_gained 0.17
folC 2747646 c.-48G>T upstream_gene_variant 0.13
ribD 2987554 c.718_724dupTGTGCCC frameshift_variant 0.15
Rv2752c 3064958 p.Ser412Gly missense_variant 0.18
Rv2752c 3065776 p.Phe139Ser missense_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474726 c.720G>T synonymous_variant 0.12
Rv3236c 3612425 p.Ala231Val missense_variant 0.22
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
fbiB 3642477 p.Asp315Asn missense_variant 1.0
ddn 3987053 c.210T>C synonymous_variant 0.11
clpC1 4040455 p.Ala84Thr missense_variant 0.12
embC 4240810 p.Trp316* stop_gained 0.17
embC 4242075 p.Arg738Gln missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243652 c.420T>C synonymous_variant 0.18
embB 4246843 c.330T>C synonymous_variant 0.2
aftB 4268221 p.Thr206Ala missense_variant 0.15
aftB 4268614 p.Gly75Trp missense_variant 0.11
ethR 4327591 p.Arg15Trp missense_variant 0.11
ethA 4328034 c.-561C>T upstream_gene_variant 0.15
whiB6 4338283 p.Val80Ala missense_variant 0.25
whiB6 4338366 c.156G>T synonymous_variant 0.15
whiB6 4338585 c.-64G>A upstream_gene_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407550 p.Met218Thr missense_variant 0.13
gid 4408339 c.-137G>T upstream_gene_variant 0.17