TB-Profiler result

Run: SRR7535039
Summary

Run ID: SRR7535039

Sample name:

Date: 04-04-2023 19:42:06

Number of reads: 5070461

Percentage reads mapped: 98.47

Strain: lineage4.6.1.2;lineage4.3.4.2.1

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
lineage4.3 Euro-American (LAM) mainly-LAM None 0.75
lineage4.6 Euro-American T;LAM None 0.28
lineage4.6.1 Euro-American (Uganda) T2 RD724 0.25
lineage4.3.4 Euro-American (LAM) LAM RD174 0.76
lineage4.6.1.2 Euro-American T2 RD724 0.26
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 0.75
lineage4.3.4.2.1 Euro-American (LAM) LAM11 RD174 0.76
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 6140 p.Val301Leu missense_variant 0.71
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7539 p.Thr80Ala missense_variant 0.23
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491331 p.Lys183Asn missense_variant 0.74
rpoC 764995 c.1626C>G synonymous_variant 0.7
rpoC 767083 c.3714C>T synonymous_variant 0.79
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416410 p.Leu313Arg missense_variant 0.32
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101786 c.1257G>A synonymous_variant 0.22
PPE35 2169320 p.Leu431Phe missense_variant 0.28
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519162 p.Val350Ile missense_variant 0.29
Rv2752c 3065954 p.Thr80Ala missense_variant 0.3
thyA 3073806 c.666C>G synonymous_variant 0.4
thyA 3073868 p.Thr202Ala missense_variant 0.74
ald 3086788 c.-32T>C upstream_gene_variant 0.78
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 0.81
alr 3840719 c.702A>G synonymous_variant 0.74
alr 3840869 c.552C>G synonymous_variant 0.77
rpoA 3877896 c.612G>T synonymous_variant 0.75
clpC1 4038287 c.2418C>T synonymous_variant 0.76
clpC1 4038857 c.1848C>A synonymous_variant 0.14
embC 4240572 p.Gly237Ala missense_variant 0.71
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245055 p.Thr608Asn missense_variant 0.35
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.71