TB-Profiler result

Run: ERR4820305
Summary

Run ID: ERR4820305

Sample name:

Date: 01-04-2023 16:36:23

Number of reads: 291018

Percentage reads mapped: 99.41

Strain: lineage3

Drug-resistance: HR-TB

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
lineage3 East-African-Indian CAS RD750 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
katG 2155064 p.Ala350Thr missense_variant 0.22 isoniazid
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 7585 p.Ser95Thr missense_variant 1.0
gyrA 9283 p.Gly661Asp missense_variant 0.25
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9596 c.2295G>T synonymous_variant 1.0
gyrA 9777 p.Asn826Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoB 762636 p.Lys944Glu missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764081 p.Glu238Lys missense_variant 0.33
rpoC 764181 p.Asp271Gly missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407083 c.258G>T synonymous_variant 0.38
Rv1258c 1407255 p.Ala29Val missense_variant 0.11
rrs 1471656 n.-190G>A upstream_gene_variant 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169239 c.1374T>C synonymous_variant 0.22
PPE35 2170362 p.Glu84Gly missense_variant 0.29
PPE35 2170769 c.-157C>T upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
eis 2715432 c.-100C>T upstream_gene_variant 1.0
ahpC 2725948 c.-245C>A upstream_gene_variant 0.17
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
folC 2747206 c.393G>T synonymous_variant 0.29
ribD 2986763 c.-76G>A upstream_gene_variant 0.18
ribD 2986992 p.Gly52Ser missense_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3613100 p.Ala6Val missense_variant 0.29
fbiB 3642427 p.Val298Ala missense_variant 0.17
clpC1 4039654 p.Thr351Ser missense_variant 0.33
clpC1 4039674 p.Pro344Gln missense_variant 0.29
clpC1 4039676 c.1029G>A synonymous_variant 0.29
clpC1 4039682 c.1023C>T synonymous_variant 0.29
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243484 c.252C>T synonymous_variant 0.15
aftB 4267146 p.Ala564Val missense_variant 0.33
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0