TB-Profiler result

Run: SRR6982399
Summary

Run ID: SRR6982399

Sample name:

Date: 04-04-2023 18:36:17

Number of reads: 457233

Percentage reads mapped: 98.91

Strain: lineage4.9

Drug-resistance: HR-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
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
gid 4407851 c.351delG frameshift_variant 1.0 streptomycin
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
gyrB 6968 p.Asp577Tyr missense_variant 0.1
gyrB 7233 p.Arg665His missense_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 0.96
mshA 575761 c.414C>T synonymous_variant 1.0
ccsA 620748 c.858T>G synonymous_variant 0.25
rpoB 759620 c.-187A>C upstream_gene_variant 0.23
rpoB 759814 p.Asp3Gly missense_variant 1.0
rpoB 760820 c.1014T>C synonymous_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777313 p.Pro390Thr missense_variant 1.0
mmpL5 778272 p.Pro70Gln missense_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781502 c.-58G>T upstream_gene_variant 1.0
fbiC 1303016 p.Val29Gly missense_variant 0.33
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
fbiA 3641507 p.Ala322Val missense_variant 0.13
panD 4044302 c.-21C>A upstream_gene_variant 0.12
embA 4242511 c.-722G>T upstream_gene_variant 0.11
ethR 4328047 p.Pro167Ala missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407797 p.Ser136Pro missense_variant 0.12