TB-Profiler result

Run: ERR11465906
Summary

Run ID: ERR11465906

Sample name:

Date: 10-01-2024 05:25:54

Number of reads: 1903107

Percentage reads mapped: 99.66

Strain: lineage4.4.1.1

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
lineage4.4 Euro-American S;T None 0.99
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans 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
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 9138 p.Gln613Glu missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 763148 c.-222G>C upstream_gene_variant 0.11
rpoC 763166 c.-204A>G upstream_gene_variant 0.12
rpoC 763169 c.-201A>G upstream_gene_variant 0.12
rpoC 763486 c.117T>C synonymous_variant 0.12
rpoC 764098 c.729A>G synonymous_variant 0.15
rpoC 764101 c.732C>G synonymous_variant 0.15
rpoC 765700 c.2331T>C synonymous_variant 0.11
rpoC 766861 c.3492G>C synonymous_variant 0.12
rpoC 766864 c.3495G>C synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777416 c.1065G>T synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781631 c.72G>C synonymous_variant 0.14
rpsL 781649 c.90T>C synonymous_variant 0.15
rpsL 781655 c.96T>C synonymous_variant 0.17
rpsL 781682 c.123T>C synonymous_variant 0.1
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.16
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.16
rrl 1473877 n.220G>A non_coding_transcript_exon_variant 0.13
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.17
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.15
rrl 1474823 n.1166C>T non_coding_transcript_exon_variant 0.27
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.22
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.16
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.13
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.15
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.17
rrl 1475369 n.1712G>C non_coding_transcript_exon_variant 0.11
rrl 1475483 n.1826C>T non_coding_transcript_exon_variant 0.15
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.22
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.24
rrl 1475599 n.1942A>G non_coding_transcript_exon_variant 0.11
rrl 1475608 n.1951T>C non_coding_transcript_exon_variant 0.12
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.27
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.13
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.17
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.12
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.21
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.15
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.12
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.17
rpsA 1833724 c.183C>G synonymous_variant 0.12
rpsA 1833727 c.186G>C synonymous_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2168479 p.Thr712Pro missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ribD 2987468 c.630G>A synonymous_variant 0.16
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568779 c.-100T>C upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
rpoA 3877656 c.852T>C synonymous_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0