TB-Profiler result

Run: ERR023196
Summary

Run ID: ERR023196

Sample name:

Date: 31-03-2023 07:58:50

Number of reads: 6201772

Percentage reads mapped: 98.75

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 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
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
mshA 576468 p.Val374Gly missense_variant 0.26
rpoB 759827 p.Ser7Arg missense_variant 0.17
rpoB 759831 p.Thr9Pro missense_variant 0.3
rpoC 766938 p.Asn1190Thr missense_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305402 c.2472C>T synonymous_variant 1.0
atpE 1460907 c.-138T>C upstream_gene_variant 1.0
atpE 1461083 c.39T>G synonymous_variant 0.34
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.26
inhA 1674952 p.Pro251Ala missense_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2859377 p.Thr348Ala missense_variant 0.23
Rv2752c 3065697 c.495C>T synonymous_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fprA 3475230 p.Asp408Glu missense_variant 0.98
clpC1 4039729 p.Asp326Asn missense_variant 1.0
clpC1 4040093 c.612C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 0.99
embA 4243413 p.Pro61Ala missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0