TB-Profiler result

Run: ERR046839

Summary

Run ID: ERR046839

Sample name:

Date: 31-03-2023 08:53:16

Number of reads: 6908015

Percentage reads mapped: 99.46

Strain: lineage4.6.2.1

Drug-resistance: Sensitive


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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
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.2 Euro-American T;LAM RD726 1.0
lineage4.6.2.1 Euro-American T3 RD726 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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7799 c.498A>C synonymous_variant 0.14
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620748 c.858T>G synonymous_variant 0.18
rpoC 764725 p.Phe452Leu missense_variant 0.16
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777399 p.Thr361Arg missense_variant 0.19
mmpR5 778298 c.-692C>T upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416702 p.Tyr216His missense_variant 1.0
atpE 1461019 c.-26C>A upstream_gene_variant 0.16
rrs 1471658 n.-188T>G upstream_gene_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.16
inhA 1674892 p.Asn231Asp missense_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102891 p.Phe51Ser missense_variant 0.27
PPE35 2167871 c.2742G>C synonymous_variant 0.17
PPE35 2169379 p.Phe412Val missense_variant 0.16
PPE35 2169866 c.747G>C synonymous_variant 0.38
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.28
eis 2715586 c.-254G>C upstream_gene_variant 0.38
folC 2747218 p.Ile127Met missense_variant 0.15
pepQ 2859381 c.1038C>G synonymous_variant 0.16
Rv2752c 3064552 p.Arg547Pro missense_variant 0.21
Rv2752c 3064741 p.Gly484Ala missense_variant 0.26
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3641955 p.Gly141Arg missense_variant 0.27
fbiB 3642734 c.1200G>C synonymous_variant 0.17
rpoA 3878601 c.-95delG upstream_gene_variant 0.27
rpoA 3878654 c.-147A>G upstream_gene_variant 1.0
ddn 3987013 p.Gly57Ala missense_variant 0.21
clpC1 4038857 c.1848C>A synonymous_variant 0.16
clpC1 4039932 p.Gly258Val missense_variant 0.25
embC 4242476 p.Pro872Ala missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.4
embC 4242827 p.Leu989Val missense_variant 0.28
embA 4242883 c.-350C>T upstream_gene_variant 1.0
ubiA 4269529 p.Ala102Gly missense_variant 0.17
ethA 4327672 c.-199G>A upstream_gene_variant 0.2
ethR 4327912 p.Arg122Gly missense_variant 0.28
whiB6 4338595 c.-75delG upstream_gene_variant 1.0