TB-Profiler result

Run: SRR22528522
Summary

Run ID: SRR22528522

Sample name:

Date: 04-04-2023 04:17:48

Number of reads: 2079870

Percentage reads mapped: 99.63

Strain: lineage4.1.1

Drug-resistance: MDR-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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.1 Euro-American (X-type) X1;X2;X3 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
rpoB 761139 p.His445Cys missense_variant 1.0 rifampicin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
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 6052 p.Ile271Met missense_variant 1.0
gyrB 7221 p.Ser661Thr missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416699 p.Leu217Val missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1673865 c.-337C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087828 p.Pro337Thr missense_variant 0.19
fbiD 3339744 c.627A>C synonymous_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568405 p.Ala92Gly missense_variant 0.12
whiB7 3568428 c.252A>G synonymous_variant 0.15
whiB7 3568441 p.Lys80Thr missense_variant 0.13
rpoA 3878618 c.-111A>C upstream_gene_variant 0.19
clpC1 4040902 c.-198T>G upstream_gene_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 0.99
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4247028 p.Leu172Arg missense_variant 0.2
embB 4247033 p.Ser174Arg missense_variant 0.15
embB 4247039 p.Phe176Val missense_variant 0.17
embB 4247051 p.Asn180His missense_variant 0.15
embB 4247055 p.Leu181Gln missense_variant 0.26
embB 4247080 p.Phe189Leu missense_variant 0.16
embB 4248319 c.1806A>T synonymous_variant 0.2
embB 4248324 p.Ala604Gly missense_variant 0.14
embB 4249408 c.2895G>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408099 p.Leu35Arg missense_variant 1.0