TB-Profiler result

Run: ERR4818612
Summary

Run ID: ERR4818612

Sample name:

Date: 01-04-2023 15:39:19

Number of reads: 928032

Percentage reads mapped: 99.02

Strain: lineage4.4

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
lineage4.4 Euro-American S;T 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
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
thyX 3067961 c.-16C>T upstream_gene_variant 1.0 para-aminosalicylic_acid
gid 4408087 c.115delC frameshift_variant 1.0 streptomycin
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 8028 p.Ala243Thr missense_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576750 p.Lys468Thr missense_variant 0.29
ccsA 620748 c.858T>G synonymous_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407084 p.Val86Gly missense_variant 0.23
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674995 p.His265Leu missense_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170558 p.Ala19Pro missense_variant 0.96
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714523 p.His270Gln missense_variant 1.0
folC 2746335 p.Gly422Ser missense_variant 0.14
folC 2746764 p.Leu279Val missense_variant 0.1
ribD 2987334 p.Ser166Pro missense_variant 0.12
Rv2752c 3065715 c.477T>C synonymous_variant 1.0
thyA 3073951 p.Val174Glu missense_variant 1.0
thyA 3074651 c.-180C>T upstream_gene_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243324 p.Val31Ala missense_variant 1.0
embB 4247548 c.1035C>T synonymous_variant 1.0
aftB 4268928 c.-92C>T upstream_gene_variant 1.0
aftB 4269375 c.-539G>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0