TB-Profiler result

Run: ERR4813298
Summary

Run ID: ERR4813298

Sample name:

Date: 01-04-2023 12:39:40

Number of reads: 56577

Percentage reads mapped: 99.38

Strain: lineage4.9;lineage4.3.4.2

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
lineage4.9 Euro-American (H37Rv-like) T1 None 0.96
lineage4.3.4 Euro-American (LAM) LAM RD174 0.05
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 0.05
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
embB 4247431 p.Met306Ile missense_variant 1.0 ethambutol
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 5235 c.-5G>T upstream_gene_variant 1.0
gyrB 5494 c.255G>A synonymous_variant 0.33
gyrA 9621 p.Leu774Met missense_variant 0.67
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 779376 c.-896C>A upstream_gene_variant 0.5
mmpR5 779382 p.Gln131His missense_variant 0.5
atpE 1461281 c.237C>A synonymous_variant 0.5
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473650 n.-8T>C upstream_gene_variant 0.67
katG 2156140 c.-29C>A upstream_gene_variant 0.67
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3064884 c.1308C>A synonymous_variant 0.5
thyA 3073868 p.Thr202Ala missense_variant 1.0
fprA 3474898 p.Gly298Cys missense_variant 1.0
whiB7 3568458 c.222C>A synonymous_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
clpC1 4040897 c.-193G>T upstream_gene_variant 1.0
embB 4249720 c.3207C>A synonymous_variant 1.0
aftB 4266968 c.1869G>A synonymous_variant 1.0
aftB 4267006 p.Val611Ile missense_variant 1.0
ethR 4327396 c.-153A>G upstream_gene_variant 0.4
ethR 4327591 p.Arg15Trp missense_variant 0.33
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0