TB-Profiler result

Run: SRR998788
Summary

Run ID: SRR998788

Sample name:

Date: 04-04-2023 23:35:58

Number of reads: 1692807

Percentage reads mapped: 93.87

Strain: lineage4.7

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
lineage4.7 Euro-American (mainly T) T1;T5 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
rpsL 781822 p.Lys88Arg missense_variant 1.0 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
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
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474294 n.637C>G non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167908 p.Gly902Val missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746390 c.1206_1208dupCGT disruptive_inframe_insertion 0.12
pepQ 2859601 c.816_817dupGG frameshift_variant 0.12
fprA 3473897 c.-110A>G upstream_gene_variant 0.11
embC 4241124 c.1268_1270dupTGC disruptive_inframe_insertion 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244453 c.1221G>A synonymous_variant 0.2
embB 4249732 c.3219C>G synonymous_variant 1.0
ethA 4326160 c.1314C>T synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0