TB-Profiler result

Run: ERR2512411
Summary

Run ID: ERR2512411

Sample name:

Date: 31-03-2023 19:01:20

Number of reads: 4706949

Percentage reads mapped: 99.65

Strain: lineage4.6.2.2;lineage3

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
lineage3 East-African-Indian CAS RD750 0.11
lineage4 Euro-American LAM;T;S;X;H None 0.92
lineage4.6 Euro-American T;LAM None 0.89
lineage4.6.2 Euro-American T;LAM RD726 0.89
lineage4.6.2.2 Euro-American (Cameroon) LAM10-CAM RD726 0.9
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
fgd1 490918 p.His46Asp missense_variant 0.11
rpoC 762434 c.-936T>G upstream_gene_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.15
mmpR5 778298 c.-692C>T upstream_gene_variant 0.91
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
katG 2154724 p.Arg463Leu missense_variant 0.13
Rv1979c 2221746 c.1416_1418dupCCG disruptive_inframe_insertion 0.87
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 0.12
thyX 3067474 p.Pro158Ala missense_variant 0.9
Rv3083 3448567 p.His22Asp missense_variant 0.93
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242550 c.-683C>G upstream_gene_variant 0.87
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248636 p.Pro708Leu missense_variant 0.89
aftB 4267272 p.Lys522Arg missense_variant 0.89
ethR 4326739 c.-810G>C upstream_gene_variant 0.88
ethA 4328004 c.-531C>T upstream_gene_variant 0.88
whiB6 4338595 c.-75delG upstream_gene_variant 1.0