TB-Profiler result

Run: ERR2515670
Summary

Run ID: ERR2515670

Sample name:

Date: 31-03-2023 21:03:17

Number of reads: 604262

Percentage reads mapped: 99.62

Strain: lineage4.1.1.3

Drug-resistance: RR-TB

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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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 1.0
lineage4.1.1.3 Euro-American (X-type) X1;X3 RD193 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
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
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 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 759939 p.Pro45Ser missense_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407265 p.Ser26Thr missense_variant 0.11
Rv1258c 1407385 c.-45G>T upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471913 n.68A>G non_coding_transcript_exon_variant 0.11
rrs 1471986 n.144delG non_coding_transcript_exon_variant 0.11
rrl 1473471 n.-187C>G upstream_gene_variant 0.11
rrl 1476348 n.2691A>G non_coding_transcript_exon_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154678 c.1434G>C synonymous_variant 1.0
PPE35 2170738 c.-126A>T upstream_gene_variant 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726409 p.Asp73His missense_variant 1.0
pepQ 2860072 p.Gly116Val missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475225 p.Ala407Ser missense_variant 0.11
Rv3236c 3612860 p.Leu86Pro missense_variant 0.11
embC 4241662 c.1800G>T synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4245720 p.Phe830Ile missense_variant 0.11
embB 4246319 c.-195G>A upstream_gene_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
embB 4249678 c.3165C>A synonymous_variant 1.0
embB 4249732 c.3219C>G synonymous_variant 0.15
aftB 4267411 p.Gly476Cys missense_variant 0.1
aftB 4267413 p.Gly475Ala missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0