TB-Profiler result

Run: ERR4423588
Summary

Run ID: ERR4423588

Sample name:

Date: 01-04-2023 05:54:39

Number of reads: 433380

Percentage reads mapped: 99.62

Strain: lineage4.1.1.3

Drug-resistance: RR-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
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 1.0
lineage4.1.1.3 Euro-American (X-type) X1;X3 RD193 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 761095 p.Leu430Pro missense_variant 1.0 rifampicin
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
gyrB 5503 c.264C>A synonymous_variant 0.13
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781373 c.-187G>T upstream_gene_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800926 p.Arg40Ser missense_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834958 p.Leu473Met missense_variant 0.4
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.6
PPE35 2170053 p.Thr187Ser missense_variant 0.6
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746552 p.Phe349Leu missense_variant 0.2
pepQ 2860044 c.375C>T synonymous_variant 0.15
thyA 3074066 p.Gly136Ser missense_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3641963 c.429C>A synonymous_variant 0.15
ddn 3986827 c.-17T>C upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242795 p.Ala978Gly missense_variant 0.22
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 0.33
embB 4246555 c.42G>C synonymous_variant 0.29
embB 4246556 p.Ala15Pro missense_variant 0.29
embB 4247300 p.Gly263Cys missense_variant 0.12
embB 4248034 p.Arg507Ser missense_variant 0.5
embB 4249408 c.2895G>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
embR 1413440 c.1147_*2740del stop_lost&conservative_inframe_deletion&splice_region_variant 1.0