TB-Profiler result

Run: ERR2446397
Summary

Run ID: ERR2446397

Sample name:

Date: 15-08-2022 11:03:17

Number of reads: 449351

Percentage reads mapped: 99.97

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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 7585 p.Ser95Thr missense_variant 1.0
fgd1 490687 c.-96T>C upstream_gene_variant 0.17
mshA 576160 c.813C>T synonymous_variant 1.0
rpoC 763699 c.333delC frameshift_variant 0.2
rpoC 764129 p.Gly254Cys missense_variant 0.18
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781465 c.-95G>T upstream_gene_variant 0.14
rplC 800990 p.Lys61Thr missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472504 n.659A>T non_coding_transcript_exon_variant 0.11
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.22
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.13
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.13
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.13
rrs 1472574 n.729T>A non_coding_transcript_exon_variant 0.13
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.14
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.1
rrl 1476762 n.3105G>T non_coding_transcript_exon_variant 0.13
rpsA 1834080 p.Arg180His missense_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156536 c.-425C>T upstream_gene_variant 0.12
PPE35 2167964 c.2649G>T synonymous_variant 0.17
kasA 2518919 p.Gly269Ser missense_variant 1.0
ahpC 2726158 c.-35C>A upstream_gene_variant 0.12
ribD 2986882 p.Arg15Met missense_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448555 p.Gly18Trp missense_variant 0.18
Rv3083 3449832 c.1329T>C synonymous_variant 0.12
Rv3236c 3612359 p.Gly253Val missense_variant 0.2
Rv3236c 3613264 c.-148G>T upstream_gene_variant 0.14
fbiA 3640387 c.-156G>T upstream_gene_variant 0.12
rpoA 3877586 p.Leu308Phe missense_variant 1.0
clpC1 4039921 p.Arg262Ser missense_variant 0.12
clpC1 4040825 c.-121G>T upstream_gene_variant 0.11
embC 4241936 p.Arg692Gly missense_variant 0.2
embC 4242182 p.Ala774Ser missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244184 p.Ser318Leu missense_variant 0.12
aftB 4268392 p.Gly149Trp missense_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0