TB-Profiler result

Run: ERR245736
Summary

Run ID: ERR245736

Sample name:

Date: 31-03-2023 18:18:08

Number of reads: 10623558

Percentage reads mapped: 99.71

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 None 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 7493 c.192C>T synonymous_variant 0.25
mshA 576751 p.Lys468Asn missense_variant 0.22
rpoB 759620 c.-187A>C upstream_gene_variant 0.36
rpoB 759831 p.Thr9Pro missense_variant 0.28
rpoC 762836 c.-534C>G upstream_gene_variant 0.26
rpoC 764725 p.Phe452Leu missense_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303104 c.174G>T synonymous_variant 0.99
Rv1258c 1407522 c.-182C>G upstream_gene_variant 0.27
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473343 n.1498G>T non_coding_transcript_exon_variant 0.17
rrl 1473911 n.254G>A non_coding_transcript_exon_variant 0.18
rrl 1474380 n.723G>T non_coding_transcript_exon_variant 0.23
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.16
inhA 1674892 p.Asn231Asp missense_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102540 p.Ala168Gly missense_variant 0.19
PPE35 2169866 c.747G>C synonymous_variant 0.32
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.18
eis 2714569 p.Ala255Gly missense_variant 0.18
eis 2715586 c.-254G>C upstream_gene_variant 0.26
ahpC 2725954 c.-239C>T upstream_gene_variant 0.27
folC 2746333 c.1266C>T synonymous_variant 1.0
pepQ 2859680 p.Leu247Val missense_variant 0.27
Rv2752c 3064741 p.Gly484Ala missense_variant 0.26
Rv2752c 3065618 p.Gly192Arg missense_variant 0.21
Rv3236c 3611982 p.Ala379Pro missense_variant 0.34
fbiB 3641955 p.Gly141Arg missense_variant 0.24
fbiB 3642734 c.1200G>C synonymous_variant 0.18
rpoA 3877536 c.972C>T synonymous_variant 1.0
ddn 3987013 p.Gly57Ala missense_variant 0.26
clpC1 4038857 c.1848C>A synonymous_variant 0.13
clpC1 4039932 p.Gly258Val missense_variant 0.21
embC 4241056 c.1194C>G synonymous_variant 0.29
embC 4241128 c.1266G>C synonymous_variant 0.18
embC 4242476 p.Pro872Ala missense_variant 0.18
embC 4242822 p.Val987Gly missense_variant 0.26
embA 4244375 c.1143C>G synonymous_variant 0.24
ubiA 4269529 p.Ala102Gly missense_variant 0.21
ethA 4327672 c.-199G>A upstream_gene_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0