TB-Profiler result

Run: ERR4817737
Summary

Run ID: ERR4817737

Sample name:

Date: 01-04-2023 15:09:53

Number of reads: 816185

Percentage reads mapped: 99.75

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 9138 p.Gln613Glu missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575521 c.174A>G synonymous_variant 1.0
rpoB 760453 p.Val216Ala missense_variant 0.12
rpoC 766956 p.Glu1196Ala missense_variant 0.1
rpoC 766970 p.Ala1201Ser missense_variant 0.11
mmpL5 775594 c.2887T>C synonymous_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776349 p.Pro711Leu missense_variant 0.13
mmpL5 777182 c.1299C>T synonymous_variant 0.11
mmpL5 777416 c.1065G>T synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407157 p.Ala62Pro missense_variant 0.12
atpE 1461153 c.111delC frameshift_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918091 p.Ala51Val missense_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
ndh 2103225 c.-183A>C upstream_gene_variant 0.25
katG 2155543 p.Gln190Arg missense_variant 0.1
PPE35 2168479 p.Thr712Pro missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2170361 p.Glu84Asp missense_variant 1.0
Rv1979c 2222948 p.Arg73Gly missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289604 c.-363T>A upstream_gene_variant 0.11
kasA 2518061 c.-54G>C upstream_gene_variant 0.1
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
Rv3083 3449196 c.693C>T synonymous_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474223 p.Asp73Tyr missense_variant 0.11
whiB7 3568779 c.-100T>C upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
clpC1 4039729 p.Asp326Asn missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245591 p.Val787Ile missense_variant 0.1
aftB 4268450 c.387A>G synonymous_variant 0.13
aftB 4269393 c.-557G>A upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0