TB-Profiler result

Run: ERR046922
Summary

Run ID: ERR046922

Sample name:

Date: 31-03-2023 08:57:28

Number of reads: 7397241

Percentage reads mapped: 99.4

Strain: lineage4.2.2

Drug-resistance: Other

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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
lineage4.2 Euro-American H;T;LAM None 1.0
lineage4.2.2 Euro-American (Ural) T;LAM7-TUR 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
eis 2715369 c.-37G>T upstream_gene_variant 0.37 kanamycin
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 7121 p.Pro628Ala missense_variant 0.99
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576077 c.730C>T synonymous_variant 1.0
rpoC 762836 c.-534C>G upstream_gene_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777399 p.Thr361Arg missense_variant 0.28
mmpR5 779371 p.Ala128Pro missense_variant 0.22
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406750 c.591C>A synonymous_variant 0.23
atpE 1461019 c.-26C>A upstream_gene_variant 0.24
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.23
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169379 p.Phe412Val missense_variant 0.24
PPE35 2169866 c.747G>C synonymous_variant 0.37
Rv1979c 2222982 c.183G>T synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.18
eis 2715586 c.-254G>C upstream_gene_variant 0.35
pepQ 2859381 c.1038C>G synonymous_variant 0.22
pepQ 2860260 c.159G>A synonymous_variant 1.0
Rv2752c 3064741 p.Gly484Ala missense_variant 0.24
Rv2752c 3066280 c.-89C>T upstream_gene_variant 1.0
thyX 3067995 c.-50A>C upstream_gene_variant 0.24
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475280 p.Val425Gly missense_variant 0.36
fbiB 3642734 c.1200G>C synonymous_variant 0.17
fbiB 3642772 p.Asp413Ala missense_variant 0.26
rpoA 3878238 p.Asp90Glu missense_variant 0.14
clpC1 4038319 p.Pro796Ala missense_variant 1.0
clpC1 4039932 p.Gly258Val missense_variant 0.22
embC 4239842 c.-21C>A upstream_gene_variant 0.14
embC 4241456 p.Ala532Pro missense_variant 0.31
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.31
embC 4243045 p.Gln1061His missense_variant 1.0
ubiA 4269529 p.Ala102Gly missense_variant 0.3
ethA 4327672 c.-199G>A upstream_gene_variant 0.19
whiB6 4338595 c.-75delG upstream_gene_variant 1.0