TB-Profiler result

Run: ERR1950074
Summary

Run ID: ERR1950074

Sample name:

Date: 31-03-2023 15:39:10

Number of reads: 803909

Percentage reads mapped: 99.62

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 491063 p.Gly94Val missense_variant 0.12
mshA 575459 p.Val38Ile missense_variant 0.17
ccsA 619860 c.-31A>G upstream_gene_variant 0.17
rpoC 762728 c.-642C>T upstream_gene_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1305311 p.Arg794Pro missense_variant 0.12
embR 1417052 c.294_295delGC frameshift_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153925 p.Asp729Glu missense_variant 0.11
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2170035 p.Val193Gly missense_variant 0.22
PPE35 2170048 p.Leu189Val missense_variant 0.22
PPE35 2170053 p.Thr187Ser missense_variant 0.2
Rv1979c 2222978 p.Ile63Val missense_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518197 p.Asp28Ala missense_variant 0.11
kasA 2519076 p.Ala321Val missense_variant 0.2
kasA 2519163 p.Val350Gly missense_variant 0.33
kasA 2519352 p.Phe413Ser missense_variant 0.11
pepQ 2859903 c.516G>T synonymous_variant 0.11
pepQ 2860601 c.-183C>A upstream_gene_variant 0.17
fprA 3475371 c.1365C>T synonymous_variant 0.11
fbiB 3641187 c.-348T>C upstream_gene_variant 0.1
rpoA 3877886 p.Leu208Val missense_variant 0.12
rpoA 3878480 p.Ser10Thr missense_variant 0.18
clpC1 4038889 p.Glu606* stop_gained 0.15
clpC1 4040211 p.Pro165Leu missense_variant 0.25
panD 4044228 c.54C>T synonymous_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 0.96
embA 4244137 p.Ala302Val missense_variant 0.11
embB 4246544 p.Thr11Pro missense_variant 0.12
embB 4246548 p.Pro12Gln missense_variant 0.2
embB 4246555 c.42G>C synonymous_variant 0.2
embB 4246556 p.Ala15Pro missense_variant 0.2
ethA 4327398 p.Arg26Cys missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0