TB-Profiler result

Run: SRR22528554
Summary

Run ID: SRR22528554

Sample name:

Date: 04-04-2023 04:18:38

Number of reads: 1696575

Percentage reads mapped: 99.68

Strain: lineage4.3.2

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
lineage4.3.2 Euro-American (LAM) LAM3 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
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 9304 p.Gly668Asp missense_variant 1.0
mshA 576100 p.Asp251Glu missense_variant 0.12
mshA 576584 p.Arg413Gly missense_variant 0.15
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 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
fabG1 1673562 p.Lys41Asn missense_variant 0.14
fabG1 1673579 p.Arg47Pro missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860113 c.306C>G synonymous_variant 0.11
pepQ 2860144 p.Val92Gly missense_variant 0.18
pepQ 2860153 p.Glu89Ala missense_variant 0.12
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087828 p.Pro337Thr missense_variant 0.18
ald 3087846 p.Leu343Val missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568428 c.252A>C synonymous_variant 0.18
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247028 p.Leu172Arg missense_variant 0.24
embB 4247033 p.Ser174Arg missense_variant 0.23
embB 4247039 p.Phe176Val missense_variant 0.11
embB 4247055 p.Leu181Gln missense_variant 0.24
embB 4247062 c.549G>C synonymous_variant 0.14
embB 4247080 p.Phe189Leu missense_variant 0.13
embB 4248319 c.1806A>T synonymous_variant 0.18
embB 4248324 p.Ala604Gly missense_variant 0.26
aftB 4268666 c.171G>T synonymous_variant 0.2
ethA 4327501 c.-28C>T upstream_gene_variant 1.0
whiB6 4338593 c.-73delT upstream_gene_variant 1.0
whiB6 4338596 c.-75G>C upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0