TB-Profiler result

Run: SRR18715451

Summary

Run ID: SRR18715451

Sample name:

Date: 03-04-2023 20:34:57

Number of reads: 3885599

Percentage reads mapped: 99.71

Strain: lineage4.8

Drug-resistance: HR-TB


Download CSV Download TXT Download PDF Download JSON
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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 isoniazid, ethionamide
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
mshA 576108 p.Ala254Gly missense_variant 0.26
mshA 576616 c.1269G>C synonymous_variant 0.21
rpoC 764367 p.Gly333Ala missense_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.21
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407062 c.279G>A synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673553 p.Asp38Glu missense_variant 0.23
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170065 p.Ala183Gly missense_variant 0.19
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.22
folC 2747750 c.-152G>A upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.75
fbiD 3339749 p.Val211Ala missense_variant 0.22
whiB7 3568423 p.Pro86Leu missense_variant 0.15
whiB7 3568425 c.255T>G synonymous_variant 0.38
whiB7 3568428 c.252A>G synonymous_variant 0.22
whiB7 3568431 c.249C>G synonymous_variant 0.19
rpoA 3878641 c.-134C>G upstream_gene_variant 0.42
embC 4240409 p.Pro183Ala missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243331 c.99G>T synonymous_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408059 p.His48Gln missense_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0