TB-Profiler result

Run: ERR4797471
Summary

Run ID: ERR4797471

Sample name:

Date: 01-04-2023 07:40:58

Number of reads: 2894923

Percentage reads mapped: 99.81

Strain: lineage4.9

Drug-resistance: Pre-XDR-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
lineage4.9 Euro-American (H37Rv-like) T1 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
gyrA 7582 p.Asp94Gly missense_variant 1.0 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
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 7153 c.-149G>C upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.27
rpoB 762715 p.Val970Gly missense_variant 0.12
rpoB 762724 p.Gly973Asp missense_variant 0.33
rpoC 764723 p.Phe452Leu missense_variant 0.33
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472433 n.588G>A non_coding_transcript_exon_variant 0.11
rrs 1473277 n.1432G>A non_coding_transcript_exon_variant 1.0
rrl 1473890 n.233T>A non_coding_transcript_exon_variant 0.18
rrl 1474624 n.969delT non_coding_transcript_exon_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170065 p.Ala183Gly missense_variant 0.16
fbiD 3339734 p.Ala206Gly missense_variant 0.14
fbiB 3641478 c.-57C>T upstream_gene_variant 1.0
rpoA 3878641 c.-134C>G upstream_gene_variant 0.19
embB 4246548 p.Pro12Gln missense_variant 0.13
embB 4246555 c.42G>C synonymous_variant 0.13
embB 4246556 p.Ala15Pro missense_variant 0.17
embB 4246563 p.Leu17Trp missense_variant 0.12
embB 4246567 c.54G>T synonymous_variant 0.14
embB 4246584 p.Arg24Pro missense_variant 0.17
aftB 4268619 p.Val73Gly missense_variant 0.34
whiB6 4338595 c.-75delG upstream_gene_variant 1.0