TB-Profiler result

Run: ERR11465833
Summary

Run ID: ERR11465833

Sample name:

Date: 10-01-2024 04:33:23

Number of reads: 3540957

Percentage reads mapped: 99.51

Strain: lineage4.3.2.1

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
Rifampicin
Isoniazid
Ethambutol
Pyrazinamide
Streptomycin
Fluoroquinolones
Moxifloxacin
Ofloxacin
Levofloxacin
Ciprofloxacin
Aminoglycosides
Amikacin
Capreomycin
Kanamycin
Cycloserine
Ethionamide
Clofazimine
Para-aminosalicylic_acid
Delamanid
Bedaquiline
Linezolid
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
lineage4.3.2 Euro-American (LAM) LAM3 None 1.0
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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
gyrB 5520 p.Pro94Leu missense_variant 0.98
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 0.99
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 761234 c.1428G>C synonymous_variant 0.18
rpoB 761249 c.1443A>G synonymous_variant 0.14
rpoC 763142 c.-228C>G upstream_gene_variant 0.13
rpoC 763483 c.114G>C synonymous_variant 0.11
rpoC 763486 c.117T>C synonymous_variant 0.14
rpoC 763492 c.123G>C synonymous_variant 0.14
rpoC 763642 c.273G>C synonymous_variant 0.15
rpoC 764326 c.957G>C synonymous_variant 0.14
rpoC 764338 p.Glu323Asp missense_variant 0.2
rpoC 764491 c.1122G>C synonymous_variant 0.13
rpoC 764695 c.1326T>C synonymous_variant 0.11
rpoC 764701 c.1332C>G synonymous_variant 0.11
rpoC 764764 c.1395T>C synonymous_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 0.97
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781796 p.Met79Ile missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.2
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.15
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.14
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.19
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.17
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 0.99
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.21
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.21
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.21
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.26
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.13
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.24
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.17
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.16
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.14
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.2
rrl 1474558 n.901G>T non_coding_transcript_exon_variant 0.14
rrl 1474583 n.926C>T non_coding_transcript_exon_variant 0.16
rrl 1474676 n.1019T>A non_coding_transcript_exon_variant 0.31
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.15
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.17
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.15
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.17
rrl 1474905 n.1248T>C non_coding_transcript_exon_variant 0.17
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.18
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.13
rrl 1476179 n.2522C>T non_coding_transcript_exon_variant 0.17
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 0.16
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.18
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.4
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.17
rpsA 1833955 c.414G>C synonymous_variant 0.11
rpsA 1834468 c.927A>G synonymous_variant 0.15
rpsA 1834486 p.Glu315Asp missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290107 c.-866T>A upstream_gene_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 0.99
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338460 p.Met21Arg missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0