TB-Profiler result

Run: ERR4813481
Summary

Run ID: ERR4813481

Sample name:

Date: 01-04-2023 12:46:49

Number of reads: 4039194

Percentage reads mapped: 99.42

Strain: lineage4.1.1

Drug-resistance: Other

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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 Euro-American T;X;H None 0.99
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 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
gid 4407896 p.Glu103* stop_gained 0.98 streptomycin
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 6052 p.Ile271Met missense_variant 0.99
gyrB 7221 p.Ser661Thr missense_variant 0.98
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575652 p.Arg102Leu missense_variant 0.12
mshA 575777 p.Glu144Lys missense_variant 0.12
mshA 576108 p.Ala254Gly missense_variant 0.25
mshA 576270 p.Ser308Leu missense_variant 0.22
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305486 c.2556C>T synonymous_variant 0.33
embR 1416699 p.Leu217Val missense_variant 0.97
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834894 c.1353C>A synonymous_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518709 p.Glu199Lys missense_variant 0.17
folC 2746529 p.Ala357Asp missense_variant 0.12
pepQ 2859604 p.Gly272Val missense_variant 0.14
thyA 3074588 c.-117A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embC 4241147 p.Cys429Arg missense_variant 0.25
embC 4241222 p.Gly454Trp missense_variant 0.21
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243633 p.Gly134Val missense_variant 0.29
embA 4243676 c.444G>T synonymous_variant 0.13
embB 4246584 p.Arg24Pro missense_variant 0.21
embB 4247017 c.504G>T synonymous_variant 0.15
embB 4247195 p.Ala228Ser missense_variant 0.25
embB 4249408 c.2895G>A synonymous_variant 1.0
ethA 4326116 p.Thr453Ile missense_variant 0.98
whiB6 4338595 c.-75delG upstream_gene_variant 1.0