TB-Profiler result

Run: SRR6964583
Summary

Run ID: SRR6964583

Sample name:

Date: 04-04-2023 18:18:06

Number of reads: 875349

Percentage reads mapped: 99.55

Strain: lineage4.5

Drug-resistance: Other

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
lineage4.5 Euro-American H;T RD122 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
gid 4408160 c.42delG frameshift_variant 1.0 streptomycin
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 7451 c.150C>T synonymous_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7892 c.591G>A synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575446 c.99A>T synonymous_variant 0.11
mshA 576578 p.Gly411Arg missense_variant 0.14
ccsA 620029 c.139C>T synonymous_variant 1.0
rpoC 765619 c.2250G>A synonymous_variant 0.13
rpoC 767148 p.Ala1260Val missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406101 p.Pro414Ser missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673346 c.-94C>G upstream_gene_variant 0.18
fabG1 1673349 c.-91G>C upstream_gene_variant 0.18
fabG1 1673357 c.-83G>A upstream_gene_variant 0.19
fabG1 1673359 c.-81T>C upstream_gene_variant 0.19
fabG1 1673361 c.-79C>G upstream_gene_variant 0.18
fabG1 1673380 c.-60C>G upstream_gene_variant 0.3
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102074 p.Met323Ile missense_variant 0.12
PPE35 2168945 c.1668T>C synonymous_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.58
PPE35 2170053 p.Thr187Ser missense_variant 0.58
PPE35 2170568 p.Ile15Met missense_variant 1.0
Rv1979c 2222013 c.1152C>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860285 p.Val45Ala missense_variant 0.12
Rv2752c 3065523 c.669C>T synonymous_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3840751 p.Glu224Lys missense_variant 0.11
clpC1 4038318 p.Pro796Leu missense_variant 1.0
embC 4240668 p.Ser269Leu missense_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.18
embB 4246548 p.Pro12Gln missense_variant 0.2
embB 4246555 c.42G>C synonymous_variant 0.2
embB 4246556 p.Ala15Pro missense_variant 0.2
aftB 4268617 p.Gly74Ser missense_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0