TB-Profiler result

Run: ERR2229499

Summary

Run ID: ERR2229499

Sample name:

Date: 31-03-2023 17:15:14

Number of reads: 386730

Percentage reads mapped: 99.16

Strain: lineage4

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
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 6920 p.Val561Leu missense_variant 0.25
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 9072 p.Ala591Ser missense_variant 0.17
fgd1 490932 p.His50Gln missense_variant 0.29
fgd1 491014 p.Thr78Pro missense_variant 0.22
fgd1 491683 p.Val301Leu missense_variant 0.4
mmpL5 775612 p.Ser957Pro missense_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775915 p.Ala856Ser missense_variant 0.29
mmpL5 775918 p.Val855Ile missense_variant 0.25
mmpL5 776003 c.2478C>T synonymous_variant 0.33
mmpL5 777119 p.His454Gln missense_variant 0.22
mmpL5 777122 c.1359C>T synonymous_variant 0.25
mmpL5 777128 c.1353A>G synonymous_variant 0.25
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472710 n.865A>G non_coding_transcript_exon_variant 0.17
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673357 c.-83G>A upstream_gene_variant 0.33
fabG1 1673359 c.-81T>C upstream_gene_variant 0.38
fabG1 1673361 c.-79C>G upstream_gene_variant 0.33
fabG1 1673380 c.-60C>G upstream_gene_variant 0.55
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167735 p.Pro960Thr missense_variant 0.22
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169278 c.1335T>C synonymous_variant 0.33
PPE35 2169281 c.1332T>G synonymous_variant 0.33
PPE35 2169287 c.1326T>C synonymous_variant 0.25
PPE35 2169338 c.1275C>T synonymous_variant 0.12
PPE35 2169602 c.1011C>A synonymous_variant 0.13
PPE35 2169725 c.888T>C synonymous_variant 0.12
PPE35 2170035 p.Val193Ala missense_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.73
PPE35 2170053 p.Thr187Ser missense_variant 0.73
PPE35 2170147 p.Ser156Ala missense_variant 0.13
PPE35 2170157 p.Ala152Ser missense_variant 0.13
PPE35 2170238 c.375T>G synonymous_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289324 c.-83C>A upstream_gene_variant 0.2
pncA 2289429 c.-188G>T upstream_gene_variant 0.5
thyX 3067402 p.Arg182Ser missense_variant 0.29
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fbiB 3641112 c.-423T>C upstream_gene_variant 0.4
alr 3841546 c.-126C>A upstream_gene_variant 0.27
clpC1 4039714 p.Tyr331His missense_variant 0.14
clpC1 4040825 c.-121G>A upstream_gene_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245371 p.Tyr713* stop_gained 0.22
embB 4246544 p.Thr11Pro missense_variant 0.6
embB 4246656 p.Pro48Arg missense_variant 0.33
ubiA 4269797 p.Leu13Met missense_variant 0.29
ethR 4326961 c.-588G>C upstream_gene_variant 0.5
ethR 4326964 c.-585G>A upstream_gene_variant 0.5
ethR 4326970 c.-579G>T upstream_gene_variant 0.5
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0