TB-Profiler result

Run: ERR11068817
Summary

Run ID: ERR11068817

Sample name:

Date: 07-04-2023 02:54:25

Number of reads: 3762034

Percentage reads mapped: 99.48

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 6438 p.Pro400Arg missense_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
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
ccsA 619975 c.85C>T synonymous_variant 0.29
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 762725 c.-645C>G upstream_gene_variant 0.18
rpoC 764545 c.1176C>T synonymous_variant 0.25
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777337 p.Val382Ile missense_variant 0.25
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801235 p.Ala143Thr missense_variant 0.14
fbiC 1304379 c.1449G>T synonymous_variant 0.11
fbiC 1304401 p.Ile491Phe missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673572 p.Thr45Pro missense_variant 0.12
inhA 1674363 c.162G>A synonymous_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918072 p.Ala45Thr missense_variant 0.2
tlyA 1918132 p.Arg65Ser missense_variant 0.12
ndh 2102275 c.768C>T synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
pepQ 2859606 c.813G>T synonymous_variant 0.17
thyX 3067288 p.Ala220Thr missense_variant 0.25
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087831 p.Ala338Thr missense_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474899 p.Gly298Asp missense_variant 0.12
whiB7 3568431 c.249C>G synonymous_variant 0.29
fbiB 3642046 p.Ala171Val missense_variant 0.11
fbiB 3642236 c.702G>A synonymous_variant 0.33
fbiB 3642812 c.1278C>T synonymous_variant 0.18
embC 4240421 p.Glu187* stop_gained 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4245459 p.Pro743Ser missense_variant 0.2
embA 4245676 p.Gly815Glu missense_variant 0.1
ethA 4328044 c.-571G>A upstream_gene_variant 0.18
whiB6 4338207 c.315G>A synonymous_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0