TB-Profiler result

Run: ERR552454
Summary

Run ID: ERR552454

Sample name:

Date: 02-08-2023 08:49:31

Number of reads: NA

Percentage reads mapped: NA

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490674 c.-109G>T upstream_gene_variant 0.11
mshA 575548 c.201C>T synonymous_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 766006 c.2637C>T synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779447 p.Ala153Val missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801360 p.Lys184Asn missense_variant 0.1
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918568 p.Ala210Val missense_variant 0.12
PPE35 2169441 p.Ala391Asp missense_variant 0.11
PPE35 2170003 p.Ala204Thr missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288690 c.552C>T synonymous_variant 0.11
kasA 2518919 p.Gly269Ser missense_variant 1.0
pepQ 2859534 c.885A>G synonymous_variant 0.1
Rv2752c 3065824 p.Pro123Leu missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
thyA 3074648 c.-177T>G upstream_gene_variant 0.25
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448952 p.Leu150Arg missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568746 c.-67G>A upstream_gene_variant 0.1
Rv3236c 3612157 c.960G>A synonymous_variant 0.12
fbiA 3640691 p.Asp50Gly missense_variant 0.11
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039320 c.1377_1384delACAGCGTG frameshift_variant 0.18
clpC1 4039332 c.1367_1372delCACTGG disruptive_inframe_deletion 0.18
clpC1 4039343 p.Glu454Val missense_variant 0.18
clpC1 4039346 p.Arg453His missense_variant 0.18
embC 4240855 c.993G>C synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243554 p.Arg108Ser missense_variant 0.14
embA 4244113 p.Tyr294Cys missense_variant 0.12
embA 4245194 c.1962G>A synonymous_variant 0.11
embB 4247202 p.Val230Ala missense_variant 0.11
aftB 4267726 c.1111C>T synonymous_variant 0.11
aftB 4267756 p.Lys361Glu missense_variant 0.11
ubiA 4269031 p.Gly268Val missense_variant 0.1
ubiA 4269791 p.Ala15Thr missense_variant 0.11
ethA 4326391 c.1083G>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407604 p.Ala200Glu missense_variant 1.0
gid 4407875 p.Val110Leu missense_variant 0.11
gid 4408156 p.Leu16Arg missense_variant 1.0