TB-Profiler result

Run: ERR11043393
Summary

Run ID: ERR11043393

Sample name:

Date: 31-03-2023 11:33:32

Number of reads: 4828758

Percentage reads mapped: 99.76

Strain: lineage4.8

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 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
rpoB 761114 c.1312_1314delAAC conservative_inframe_deletion 0.14 rifampicin
rpoB 761155 p.Ser450Leu missense_variant 0.84 rifampicin
ahpC 2726136 c.-57C>T upstream_gene_variant 1.0 isoniazid
embB 4247729 p.Gly406Ser missense_variant 0.73 ethambutol
katG 2155312 c.-13142_799del frameshift_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
rpoB 759939 p.Pro45Ser missense_variant 0.39
rpoB 761528 p.Asp574Glu missense_variant 0.15
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 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155316 p.Ile266Phe missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
rpoA 3877949 p.Thr187Ala missense_variant 0.21
clpC1 4040071 p.Pro212Ala missense_variant 0.89
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407642 c.552_560delTGATGTCAG disruptive_inframe_deletion 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0