TB-Profiler result

Run: ERR551176
Summary

Run ID: ERR551176

Sample name:

Date: 02-08-2023 08:19:25

Number of reads: NA

Percentage reads mapped: NA

Strain: lineage4.3.4

Drug-resistance: HR-TB

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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
lineage4.3.4 Euro-American (LAM) LAM RD174 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
fabG1 1673423 c.-17G>T upstream_gene_variant 1.0 isoniazid, ethionamide
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
gyrB 6126 p.Gly296Ala missense_variant 0.2
gyrB 6363 c.1127delG frameshift_variant 0.18
gyrB 6495 p.Ala419Val 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 620532 c.642T>G synonymous_variant 0.4
ccsA 620748 c.858T>G synonymous_variant 0.33
rpoB 762185 c.2379G>A synonymous_variant 0.22
rpoB 763108 p.Val1101Ala missense_variant 0.4
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 0.92
fbiC 1303369 p.Leu147Ile missense_variant 0.33
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472818 n.973C>A non_coding_transcript_exon_variant 0.12
rrl 1474155 n.498G>A non_coding_transcript_exon_variant 0.25
rrl 1474219 n.562G>C non_coding_transcript_exon_variant 0.25
inhA 1674141 c.-61T>C upstream_gene_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168015 c.2598C>A synonymous_variant 0.4
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289200 c.42C>T synonymous_variant 0.18
kasA 2518147 c.33C>T synonymous_variant 0.6
kasA 2518423 c.309C>A synonymous_variant 0.33
ribD 2986729 c.-110G>A upstream_gene_variant 1.0
ribD 2986961 p.Leu41Phe missense_variant 0.18
Rv2752c 3067105 c.-914A>G upstream_gene_variant 0.29
thyX 3067365 p.His194Arg missense_variant 0.25
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568611 c.69T>G synonymous_variant 0.25
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
alr 3840196 c.1225T>C stop_lost&splice_region_variant 0.4
alr 3840534 p.Gly296Ala missense_variant 0.29
ddn 3987097 p.Asn85Ser missense_variant 0.18
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039114 p.Ala531Thr missense_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4266973 c.1863delC frameshift_variant 0.4
ethA 4326052 c.1422C>T synonymous_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0