TB-Profiler result

Run: ERR2229127
Summary

Run ID: ERR2229127

Sample name:

Date: 31-03-2023 16:42:14

Number of reads: 347245

Percentage reads mapped: 99.42

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
gyrA 6526 c.-776T>C upstream_gene_variant 0.15
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 8030 c.729C>A synonymous_variant 0.12
rpoB 761152 p.Leu449Gln missense_variant 0.2
rpoC 764500 c.1131C>T synonymous_variant 0.4
rpoC 765769 c.2400C>A synonymous_variant 0.5
rpoC 766839 p.Ile1157Asn missense_variant 0.33
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
embR 1416779 p.Val190Glu missense_variant 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472378 n.533G>T non_coding_transcript_exon_variant 0.33
rrl 1476224 n.2568delT non_coding_transcript_exon_variant 0.29
fabG1 1673346 c.-94C>G upstream_gene_variant 0.12
fabG1 1673380 c.-60C>G upstream_gene_variant 0.53
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154929 p.Arg395Ser missense_variant 0.33
PPE35 2167965 p.Ala883Gly missense_variant 0.25
PPE35 2167967 c.2646A>C synonymous_variant 0.25
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2168882 c.1731T>A synonymous_variant 0.33
PPE35 2169378 p.Phe412Tyr missense_variant 0.15
PPE35 2169623 c.990T>C synonymous_variant 0.2
PPE35 2169879 p.Phe245Ser missense_variant 0.12
PPE35 2169882 p.Ser244Asn missense_variant 0.12
PPE35 2169890 c.723C>T synonymous_variant 0.13
PPE35 2169893 c.720C>A synonymous_variant 0.13
PPE35 2169902 p.Leu237Phe missense_variant 0.23
PPE35 2170048 p.Leu189Val missense_variant 0.31
PPE35 2170053 p.Thr187Ser missense_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289128 c.114G>T synonymous_variant 0.22
eis 2715278 c.55C>T synonymous_variant 0.22
thyX 3067701 p.Ile82Thr missense_variant 0.22
thyX 3067754 c.192C>T synonymous_variant 0.2
Rv3236c 3612290 p.Leu276Pro missense_variant 0.22
alr 3841283 c.138A>G synonymous_variant 0.25
rpoA 3877876 p.Ala211Asp missense_variant 0.2
rpoA 3877912 p.Lys199Arg missense_variant 0.22
embC 4240135 c.273C>T synonymous_variant 0.29
embC 4241191 c.1329C>A synonymous_variant 0.33
embA 4242529 c.-704G>A upstream_gene_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247024 p.Pro171Ala missense_variant 0.33
aftB 4268737 p.Val34Phe missense_variant 0.18
ubiA 4269430 p.Gln135Arg missense_variant 0.22
ethA 4326314 p.Thr387Ser missense_variant 0.15
ethR 4326937 c.-612G>C upstream_gene_variant 0.33
ethA 4327068 p.Leu136Val missense_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0