TB-Profiler result

Run: SRR7645919
Summary

Run ID: SRR7645919

Sample name:

Date: 04-04-2023 19:58:29

Number of reads: 1994207

Percentage reads mapped: 99.68

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.98
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
embB 4248003 p.Gln497Pro missense_variant 1.0 ethambutol
embB 4249583 p.Asp1024Asn missense_variant 1.0 ethambutol
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 8941 c.1644delG frameshift_variant 0.17
fgd1 491313 c.531C>T synonymous_variant 0.18
rpoC 762836 c.-534C>G upstream_gene_variant 0.1
rpoC 766367 p.Ala1000Thr missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777290 c.1191G>A synonymous_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302891 c.-40G>A upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472151 n.306C>G non_coding_transcript_exon_variant 0.11
rrs 1473203 n.1358G>T non_coding_transcript_exon_variant 0.15
rrl 1473758 n.101G>T non_coding_transcript_exon_variant 0.11
rrl 1473968 n.315delG non_coding_transcript_exon_variant 0.13
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474654 n.997C>T non_coding_transcript_exon_variant 0.18
inhA 1674952 p.Pro251Ala missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169909 p.Asn235Ile missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3065959 c.232delG frameshift_variant 0.11
fbiD 3339561 c.444C>A synonymous_variant 0.11
fprA 3474424 c.419delA frameshift_variant 0.12
fbiA 3641030 p.Ser163Asn missense_variant 0.13
fbiB 3642535 p.Arg334Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247395 c.882C>T synonymous_variant 1.0
ethA 4326704 p.Pro257Gln missense_variant 0.95
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407967 p.Leu79Trp missense_variant 1.0
gid 4408060 p.His48Arg missense_variant 0.4
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0