TB-Profiler result

Run: ERR5908147
Summary

Run ID: ERR5908147

Sample name:

Date: 02-04-2023 00:51:08

Number of reads: 641664

Percentage reads mapped: 99.75

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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
fbiA 3640687 p.Asp49Tyr missense_variant 0.15 delamanid
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 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 8069 c.768T>C synonymous_variant 0.12
gyrA 9112 p.Pro604His missense_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575863 c.516G>A synonymous_variant 0.11
mshA 576250 c.903G>T synonymous_variant 0.11
rpoB 759759 c.-48T>C upstream_gene_variant 0.14
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776564 c.1917C>A synonymous_variant 0.15
mmpL5 776888 c.1593C>A synonymous_variant 0.22
mmpL5 779097 c.-617C>A upstream_gene_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1461258 p.Ala72Ser missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472320 n.475G>T non_coding_transcript_exon_variant 0.33
rrs 1472366 n.521G>T non_coding_transcript_exon_variant 0.29
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156196 c.-85C>T upstream_gene_variant 1.0
PPE35 2167790 c.2823C>A synonymous_variant 0.22
PPE35 2167901 c.2712T>C synonymous_variant 0.22
PPE35 2169448 p.Phe389Leu missense_variant 0.5
PPE35 2169757 p.Asn286Asp missense_variant 0.5
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518712 p.Gly200* stop_gained 0.12
kasA 2518919 p.Gly269Ser missense_variant 1.0
folC 2746340 p.Ala420Val missense_variant 1.0
Rv2752c 3065040 c.1152C>A synonymous_variant 1.0
Rv2752c 3065610 c.582C>A synonymous_variant 0.15
Rv2752c 3067154 c.-963G>T upstream_gene_variant 0.11
thyA 3073862 p.Gly204Ser missense_variant 0.12
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3877636 p.Gln291Arg missense_variant 0.11
ddn 3987110 p.Tyr89* stop_gained 0.2
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039095 p.Ala537Asp missense_variant 0.11
clpC1 4040581 p.Glu42Lys missense_variant 0.13
embC 4241553 p.Pro564Gln missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245723 p.Gly831* stop_gained 0.11
ethA 4326593 p.Cys294Phe missense_variant 0.22
ethA 4327428 p.Gly16Cys missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407597 c.606G>T synonymous_variant 0.12
gid 4407857 c.346C>A synonymous_variant 0.11
gid 4408156 p.Leu16Arg missense_variant 1.0
Rv2752c 3065039 c.1070_1152delNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNT frameshift_variant 1.0