TB-Profiler result

Run: ERR550962
Summary

Run ID: ERR550962

Sample name:

Date: 02-08-2023 08:11:42

Number of reads: NA

Percentage reads mapped: NA

Strain: lineage4.6.2.2

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
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.2 Euro-American T;LAM RD726 0.99
lineage4.6.2.2 Euro-American (Cameroon) LAM10-CAM RD726 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
gyrB 6932 p.Gln565Lys missense_variant 0.27
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 575955 p.Glu203Gly missense_variant 0.12
ccsA 620532 c.642T>G synonymous_variant 0.3
ccsA 620748 c.858T>G synonymous_variant 0.33
rpoB 759620 c.-187A>C upstream_gene_variant 0.31
rpoB 759673 c.-134T>G upstream_gene_variant 1.0
rpoB 762699 p.Ile965Val missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 778298 c.-692C>T upstream_gene_variant 1.0
mmpS5 778509 p.Ala133Thr missense_variant 0.1
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303995 c.1065C>T synonymous_variant 0.12
embR 1416438 p.Gln304Lys missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833412 c.-130C>T upstream_gene_variant 1.0
rpsA 1834923 c.1383delT frameshift_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102671 c.372T>C synonymous_variant 0.12
katG 2154659 p.Gly485Ser missense_variant 0.14
PPE35 2168237 c.2376G>T synonymous_variant 0.13
PPE35 2168575 p.Ala680Ser missense_variant 0.2
PPE35 2168681 p.Phe644Leu missense_variant 0.15
Rv1979c 2221746 c.1416_1418dupCCG disruptive_inframe_insertion 1.0
Rv1979c 2222061 c.1104G>A synonymous_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714837 p.Val166Phe missense_variant 0.18
pepQ 2860093 p.Ala109Val missense_variant 0.17
pepQ 2860100 c.319C>T synonymous_variant 0.17
thyX 3067532 c.414C>T synonymous_variant 0.18
Rv3083 3448567 p.His22Asp missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474385 p.Asp127Asn missense_variant 0.22
Rv3236c 3612835 c.282T>G synonymous_variant 0.18
Rv3236c 3613139 c.-23G>A upstream_gene_variant 1.0
fbiA 3640727 p.Leu62Pro missense_variant 0.11
rpoA 3878482 p.Leu9Pro missense_variant 0.67
panD 4044306 c.-25T>C upstream_gene_variant 0.13
embC 4240646 p.Phe262Val missense_variant 0.23
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248845 p.Gly778Ser missense_variant 0.13
aftB 4267272 p.Lys522Arg missense_variant 1.0
ethR 4326739 c.-810G>C upstream_gene_variant 1.0
ethA 4328004 c.-531C>T upstream_gene_variant 1.0
whiB6 4338218 p.Asn102Asp missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0