TB-Profiler result

Run: ERR4819434
Summary

Run ID: ERR4819434

Sample name:

Date: 01-04-2023 16:06:20

Number of reads: 84646

Percentage reads mapped: 97.39

Strain: lineage4;lineage2.2.1

Drug-resistance: Other

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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
lineage2 East-Asian Beijing RD105 0.07
lineage4 Euro-American LAM;T;S;X;H None 0.98
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.08
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
pncA 2288933 p.Tyr103* stop_gained 1.0 pyrazinamide
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
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766148 c.2781delC frameshift_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 778588 p.Gln106His missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1918462 p.Ala175Pro missense_variant 0.67
PPE35 2170687 c.-75C>T upstream_gene_variant 0.29
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860138 p.Lys94Arg missense_variant 0.4
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086826 p.Val3Ile missense_variant 0.4
fprA 3474646 p.Glu214Lys missense_variant 0.5
fprA 3474690 c.684G>A synonymous_variant 0.33
fprA 3474866 p.Ile287Asn missense_variant 0.5
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
alr 3840473 c.948C>T synonymous_variant 0.67
embC 4241163 p.Leu434* stop_gained 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0