TB-Profiler result

Run: ERR2229351
Summary

Run ID: ERR2229351

Sample name:

Date: 31-03-2023 17:05:26

Number of reads: 1220774

Percentage reads mapped: 99.0

Strain: lineage4.8

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
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
katG 2155573 p.Thr180Lys missense_variant 0.13 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
gyrB 6178 c.939C>A synonymous_variant 0.14
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 8528 c.1227G>A synonymous_variant 0.12
mshA 575833 c.486C>A synonymous_variant 0.12
mshA 576108 p.Ala254Gly missense_variant 0.54
mshA 576482 p.Val379Leu missense_variant 0.21
rpoB 760571 c.765G>T synonymous_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775652 c.2829C>A synonymous_variant 0.2
mmpL5 776071 p.Ile804Phe missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1303894 p.Arg322Trp missense_variant 0.17
atpE 1460912 c.-133C>A upstream_gene_variant 0.12
atpE 1460967 c.-78G>T upstream_gene_variant 0.13
atpE 1461017 c.-28T>C upstream_gene_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474863 n.1206A>T non_coding_transcript_exon_variant 0.22
rrl 1475208 n.1551C>A non_coding_transcript_exon_variant 0.13
fabG1 1673346 c.-94C>G upstream_gene_variant 0.16
fabG1 1673349 c.-91G>C upstream_gene_variant 0.18
fabG1 1673357 c.-83G>A upstream_gene_variant 0.22
fabG1 1673359 c.-81T>C upstream_gene_variant 0.23
fabG1 1673361 c.-79C>G upstream_gene_variant 0.23
fabG1 1673380 c.-60C>G upstream_gene_variant 0.43
fabG1 1673564 p.Val42Ala missense_variant 0.13
rpsA 1834574 p.Met345Val missense_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918080 c.141C>T synonymous_variant 0.12
ndh 2102124 p.Pro307Thr missense_variant 0.2
katG 2156408 c.-297C>A upstream_gene_variant 0.12
PPE35 2167965 p.Ala883Gly missense_variant 0.19
PPE35 2167967 c.2646A>C synonymous_variant 0.19
PPE35 2168064 p.Thr850Asn missense_variant 0.12
PPE35 2168419 p.Asp732Asn missense_variant 0.12
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169293 c.1320T>C synonymous_variant 0.15
PPE35 2169717 p.Asn299Ile missense_variant 0.14
PPE35 2169725 c.888T>C synonymous_variant 0.14
PPE35 2169902 c.711G>C synonymous_variant 0.15
PPE35 2170048 p.Leu189Val missense_variant 0.71
PPE35 2170053 p.Thr187Ser missense_variant 0.71
PPE35 2170238 c.375T>G synonymous_variant 0.12
Rv1979c 2222315 p.Ala284Ser missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519140 c.1026G>C synonymous_variant 0.13
kasA 2519143 c.1029G>C synonymous_variant 0.12
pepQ 2860181 p.Gly80Trp missense_variant 0.33
ribD 2986697 c.-141_-140delGT upstream_gene_variant 0.13
Rv2752c 3064571 p.Val541Met missense_variant 0.22
Rv3236c 3612181 c.936T>A synonymous_variant 0.2
Rv3236c 3612585 p.Trp178Arg missense_variant 0.15
Rv3236c 3613009 c.108T>C synonymous_variant 0.12
fbiA 3640646 p.Ser35Leu missense_variant 0.14
alr 3840396 p.Cys342Phe missense_variant 0.11
alr 3841612 c.-193_-192insC upstream_gene_variant 0.22
clpC1 4039160 p.His515Gln missense_variant 0.12
clpC1 4039645 p.His354Asp missense_variant 0.25
clpC1 4040024 c.681A>G synonymous_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.2
embB 4246548 p.Pro12Gln missense_variant 0.39
embB 4246555 c.42G>C synonymous_variant 0.58
embB 4246556 p.Ala15Pro missense_variant 0.58
embB 4246563 p.Leu17Trp missense_variant 0.43
embB 4246567 c.54G>T synonymous_variant 0.36
whiB6 4338595 c.-75delG upstream_gene_variant 1.0