TB-Profiler result

Run: ERR4829049
Summary

Run ID: ERR4829049

Sample name:

Date: 01-04-2023 19:15:02

Number of reads: 1642239

Percentage reads mapped: 99.64

Strain: lineage4.7

Drug-resistance: MDR-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 0.95
lineage4.7 Euro-American (mainly T) T1;T5 None 0.91
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
rpoB 761155 p.Ser450Leu missense_variant 0.96 rifampicin
katG 2155168 p.Ser315Thr missense_variant 0.92 isoniazid
pncA 2289001 p.Phe81Val missense_variant 0.87 pyrazinamide
ald 3087278 c.464delG frameshift_variant 0.9 cycloserine
embA 4243221 c.-12C>T upstream_gene_variant 0.95 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
mshA 576108 p.Ala254Gly missense_variant 0.22
mshA 576482 p.Val379Leu missense_variant 0.17
rpoC 763031 c.-339T>C upstream_gene_variant 0.11
rpoC 764916 p.Leu516Pro missense_variant 0.95
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 0.81
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 0.1
fbiD 3339734 p.Ala206Gly missense_variant 0.4
clpC1 4039889 c.816G>A synonymous_variant 0.97
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.5
embB 4247028 p.Leu172Arg missense_variant 0.23
embB 4249732 c.3219C>G synonymous_variant 0.98
ethR 4327826 p.Asn93Ser missense_variant 0.95
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407627 c.575delG frameshift_variant 0.95