TB-Profiler result

Run: ERR11068720
Summary

Run ID: ERR11068720

Sample name:

Date: 06-04-2023 23:21:45

Number of reads: 3513913

Percentage reads mapped: 99.57

Strain: lineage4.4.1.1

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
lineage4.4 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
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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576044 p.Ala233Thr missense_variant 0.12
mshA 576119 p.Ala258Pro missense_variant 0.25
mshA 576649 c.1302C>T synonymous_variant 0.17
mshA 576687 p.Glu447Gly missense_variant 0.25
rpoC 766942 c.3573C>T synonymous_variant 0.17
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
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918572 c.633C>T synonymous_variant 0.11
ndh 2102342 p.Ala234Val missense_variant 0.11
ndh 2102990 p.Val18Ala missense_variant 1.0
katG 2155069 p.Ala348Gly missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746758 p.Gly281Ser missense_variant 1.0
ribD 2987298 p.Gln154Glu missense_variant 0.11
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
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
alr 3841117 p.Ala102Thr missense_variant 0.12
alr 3841133 c.288G>A synonymous_variant 0.1
clpC1 4038217 p.Pro830Ser missense_variant 0.11
embC 4242479 p.Thr873Ser missense_variant 0.11
embC 4242530 p.Arg890* stop_gained 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247915 p.Arg468Cys missense_variant 0.25
whiB6 4338547 c.-26A>G upstream_gene_variant 0.9
whiB6 4338595 c.-75delG upstream_gene_variant 1.0