TB-Profiler result

Run: ERR046831
Summary

Run ID: ERR046831

Sample name:

Date: 31-03-2023 08:53:12

Number of reads: 6892717

Percentage reads mapped: 99.66

Strain: lineage4.8

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
lineage4.8 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 7362 p.Glu21Gln missense_variant 1.0
fgd1 491784 c.1002A>C synonymous_variant 1.0
mshA 576751 p.Lys468Asn missense_variant 0.18
ccsA 620748 c.858T>G synonymous_variant 0.17
rpoC 762836 c.-534C>G upstream_gene_variant 0.19
rpoC 764725 p.Phe452Leu missense_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779371 p.Ala128Pro missense_variant 0.22
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800827 p.Leu7Phe missense_variant 1.0
atpE 1460992 c.-53A>C upstream_gene_variant 1.0
atpE 1461019 c.-26C>A upstream_gene_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.16
inhA 1673787 c.-415G>A upstream_gene_variant 0.99
inhA 1674892 p.Asn231Asp missense_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918601 p.His221Arg missense_variant 1.0
ndh 2102540 p.Ala168Gly missense_variant 0.19
ndh 2102891 p.Phe51Ser missense_variant 0.19
PPE35 2169379 p.Phe412Val missense_variant 0.2
PPE35 2169866 c.747G>C synonymous_variant 0.23
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288982 p.Thr87Met missense_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.25
eis 2714569 p.Ala255Gly missense_variant 0.22
eis 2715586 c.-254G>C upstream_gene_variant 0.35
ahpC 2726756 c.564C>G synonymous_variant 0.22
pepQ 2859381 c.1038C>G synonymous_variant 0.17
Rv2752c 3064741 p.Gly484Ala missense_variant 0.25
Rv2752c 3065618 p.Gly192Arg missense_variant 0.17
thyX 3067995 c.-50A>C upstream_gene_variant 0.19
thyA 3073806 c.666C>G synonymous_variant 0.22
Rv3083 3448497 c.-7T>A upstream_gene_variant 0.83
Rv3083 3448500 c.-4A>G upstream_gene_variant 0.67
fbiB 3641955 p.Gly141Arg missense_variant 0.25
fbiB 3642512 p.Leu326Phe missense_variant 0.2
alr 3840764 c.657G>C synonymous_variant 0.99
clpC1 4038857 c.1848C>A synonymous_variant 0.15
clpC1 4039363 p.Ala448Pro missense_variant 0.24
clpC1 4039932 p.Gly258Val missense_variant 0.23
embC 4241056 c.1194C>G synonymous_variant 0.22
embC 4241456 p.Ala532Pro missense_variant 0.54
embC 4242425 p.Arg855Gly missense_variant 0.19
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.38
embC 4242827 p.Leu989Val missense_variant 0.17
ubiA 4269529 p.Ala102Gly missense_variant 0.18
ethA 4327672 c.-199G>A upstream_gene_variant 0.24
ethR 4327912 p.Arg122Gly missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0