TB-Profiler result

Run: SRR12830375
Summary

Run ID: SRR12830375

Sample name:

Date: 03-04-2023 06:58:35

Number of reads: 465171

Percentage reads mapped: 99.7

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
fgd1 491460 p.Asp226Glu missense_variant 0.12
mshA 575471 p.Asp42Tyr missense_variant 1.0
rpoB 761252 c.1446C>A synonymous_variant 0.18
rpoB 761334 p.Tyr510Asn missense_variant 0.13
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
rplC 800663 c.-146G>T upstream_gene_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrl 1474348 n.691C>A non_coding_transcript_exon_variant 0.14
rrl 1474966 n.1309G>A non_coding_transcript_exon_variant 0.25
rrl 1476610 n.2953C>T non_coding_transcript_exon_variant 0.25
fabG1 1673533 p.Ala32Ser missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102400 p.Asp215Asn missense_variant 0.12
katG 2154397 p.Thr572Met missense_variant 0.12
PPE35 2167889 c.2724C>A synonymous_variant 0.17
PPE35 2169624 p.Gly330Val missense_variant 0.18
Rv1979c 2223237 c.-73C>A upstream_gene_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726361 p.Phe57Ile missense_variant 0.17
pepQ 2859477 c.942T>C synonymous_variant 0.12
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
Rv3236c 3612361 c.756C>T synonymous_variant 1.0
Rv3236c 3612870 p.Ala83Ser missense_variant 0.12
fbiB 3640707 c.-828G>A upstream_gene_variant 0.15
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4040726 c.-22G>C upstream_gene_variant 0.1
embC 4240732 c.870C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0