TB-Profiler result

Run: SRR18715222
Summary

Run ID: SRR18715222

Sample name:

Date: 03-04-2023 20:24:38

Number of reads: 3402302

Percentage reads mapped: 99.58

Strain: lineage4

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
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 4407845 c.357delC 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7892 c.591G>A synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.29
ccsA 620619 c.729G>A synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778090 p.Gly131Arg missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304610 c.1680C>T synonymous_variant 1.0
embR 1416185 p.Thr388Arg missense_variant 1.0
embR 1416966 p.Ala128Pro missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474074 n.417C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170065 p.Ala183Gly missense_variant 0.38
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.23
pepQ 2860159 p.Ala87Gly missense_variant 0.26
fbiD 3339734 p.Ala206Gly missense_variant 0.67
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568428 c.252A>G synonymous_variant 0.18
whiB7 3568431 c.249C>G synonymous_variant 0.21
rpoA 3878575 c.-68C>T upstream_gene_variant 1.0
rpoA 3878613 c.-106A>C upstream_gene_variant 0.26
rpoA 3878618 c.-111A>C upstream_gene_variant 0.35
rpoA 3878641 c.-134C>G upstream_gene_variant 0.75
clpC1 4038318 p.Pro796Leu missense_variant 1.0
embC 4240409 p.Pro183Ala missense_variant 0.19
embA 4242259 c.-974G>A upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242835 c.-398C>T upstream_gene_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.25
embB 4246529 p.Ser6Gly missense_variant 0.21
embB 4247016 p.Ser168Trp missense_variant 0.21
embB 4248328 c.1815G>C synonymous_variant 0.21
ethA 4326092 p.Tyr461Cys missense_variant 1.0
ethA 4327310 p.Ser55Cys missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0