TB-Profiler result

Run: ERR4815436
Summary

Run ID: ERR4815436

Sample name:

Date: 01-04-2023 13:51:51

Number of reads: 886098

Percentage reads mapped: 99.06

Strain: lineage4.8

Drug-resistance: Sensitive

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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
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
ccsA 620160 c.270A>G synonymous_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801107 p.Glu100Gly missense_variant 0.1
atpE 1460907 c.-138T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917931 c.-9G>A upstream_gene_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154084 c.2028G>T synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.11
PPE35 2170053 p.Thr187Ser missense_variant 0.11
PPE35 2170385 c.228G>T synonymous_variant 0.11
PPE35 2170392 p.Gly74Ala missense_variant 0.11
PPE35 2170400 c.213G>C synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 0.97
kasA 2518879 c.765A>G synonymous_variant 0.15
kasA 2518882 c.768C>A synonymous_variant 0.14
ald 3087557 c.738A>G synonymous_variant 1.0
fprA 3474215 p.Thr70Met missense_variant 0.17
rpoA 3878022 c.486T>C synonymous_variant 0.12
rpoA 3878028 c.480G>T synonymous_variant 0.13
rpoA 3878031 c.477T>C synonymous_variant 0.13
rpoA 3878037 c.471C>G synonymous_variant 0.12
rpoA 3878046 c.462T>G synonymous_variant 0.12
rpoA 3878050 p.Arg153Lys missense_variant 0.12
rpoA 3878055 c.453A>G synonymous_variant 0.1
clpC1 4039729 p.Asp326Asn missense_variant 0.97
clpC1 4040093 c.612C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338700 c.-179T>G upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0