TB-Profiler result

Run: SRR3055719

Summary

Run ID: SRR3055719

Sample name:

Date: 04-04-2023 04:52:23

Number of reads: 677185

Percentage reads mapped: 99.43

Strain: lineage4.4.1.1.1

Drug-resistance: HR-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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans None 1.0
lineage4.4.1.1.1 Euro-American S;Orphans 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
katG 2155270 p.Ala281Val missense_variant 0.12 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
gyrB 5186 c.-54C>A upstream_gene_variant 0.11
gyrB 5239 c.-1C>G upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303904 c.977delG frameshift_variant 0.11
embR 1417064 p.Ala95Val missense_variant 0.12
embR 1417092 p.Ala86Thr missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102324 p.Gly240Asp missense_variant 0.1
ndh 2102509 c.534T>C synonymous_variant 0.12
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2169854 c.759T>C synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289924 c.-683C>T upstream_gene_variant 0.11
folC 2746727 p.Leu291* stop_gained 0.14
Rv2752c 3066268 c.-77T>A upstream_gene_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474945 c.939G>A synonymous_variant 0.11
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
clpC1 4039191 p.Thr505Ile missense_variant 0.13
clpC1 4039281 p.Val475Ala missense_variant 0.14
embC 4240716 p.His285Arg missense_variant 0.11
embA 4242310 c.-923C>T upstream_gene_variant 0.14
embC 4242335 p.Gly825Ser missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246868 p.Ser119Gly missense_variant 0.12
embB 4247906 p.Ile465Phe missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0