TB-Profiler result

Run: SRR3391832
Summary

Run ID: SRR3391832

Sample name:

Date: 04-04-2023 05:12:37

Number of reads: 537180

Percentage reads mapped: 98.54

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 0.99
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
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 isoniazid, ethionamide
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
rpoB 759715 c.-92G>A upstream_gene_variant 0.5
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
rrs 1472907 n.1062C>A non_coding_transcript_exon_variant 0.22
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.67
rrl 1475820 n.2163C>A non_coding_transcript_exon_variant 0.4
fabG1 1673380 c.-60C>G upstream_gene_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2168888 c.1725G>T synonymous_variant 0.25
PPE35 2169269 c.1344A>G synonymous_variant 0.15
PPE35 2169272 c.1341C>G synonymous_variant 0.15
PPE35 2170048 p.Leu189Val missense_variant 0.49
PPE35 2170053 p.Thr187Ser missense_variant 0.52
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289885 c.-644C>A upstream_gene_variant 0.29
Rv2752c 3065564 p.Gly210Arg missense_variant 0.22
rpoA 3877683 c.825G>A synonymous_variant 0.22
clpC1 4039729 p.Asp326Asn missense_variant 1.0
clpC1 4040409 p.Gly99Val missense_variant 0.38
embC 4241859 p.Leu666Arg missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 0.62
embB 4246555 c.42G>C synonymous_variant 0.56
embB 4246556 p.Ala15Pro missense_variant 0.56
embB 4246578 p.Ser22Cys missense_variant 0.5
embB 4247287 c.774T>G synonymous_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448495 c.-8_*1408del transcript_ablation 1.0