TB-Profiler result

Run: ERR12268496
Summary

Run ID: ERR12268496

Sample name:

Date: 11-01-2024 10:25:27

Number of reads: 1473957

Percentage reads mapped: 95.5

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 9304 p.Gly668Asp missense_variant 1.0
rpoB 760181 c.375T>C synonymous_variant 0.18
rpoB 760184 c.378A>G synonymous_variant 0.19
rpoB 761885 c.2079T>C synonymous_variant 0.16
rpoB 761948 c.2142G>C synonymous_variant 0.14
rpoB 762233 c.2427G>C synonymous_variant 0.19
rpoB 762246 c.2440C>T synonymous_variant 0.2
rpoB 762254 c.2448T>G synonymous_variant 0.2
rpoB 762257 c.2451C>G synonymous_variant 0.19
rpoC 764131 c.762T>C synonymous_variant 0.19
rpoC 764188 c.819A>G synonymous_variant 0.18
rpoC 764236 c.867G>A synonymous_variant 0.14
rpoC 764248 c.879C>G synonymous_variant 0.17
rpoC 764888 c.1519T>C synonymous_variant 0.13
rpoC 765478 c.2109T>C synonymous_variant 0.19
rpoC 765850 c.2481G>C synonymous_variant 0.22
rpoC 765883 c.2514C>G synonymous_variant 0.28
rpoC 765886 c.2517C>G synonymous_variant 0.28
rpoC 765892 c.2523T>C synonymous_variant 0.31
rpoC 765937 c.2568T>C synonymous_variant 0.18
rpoC 765967 c.2598C>T synonymous_variant 0.16
rpoC 765982 c.2613C>G synonymous_variant 0.15
rpoC 766726 c.3357T>C synonymous_variant 0.22
rpoC 766738 c.3369G>C synonymous_variant 0.16
rpoC 766765 c.3396A>C synonymous_variant 0.16
rpoC 766774 c.3405T>C synonymous_variant 0.14
rpoC 766795 c.3426C>T synonymous_variant 0.15
rpoC 766801 c.3432C>G synonymous_variant 0.15
rpoC 766804 c.3435A>G synonymous_variant 0.16
rpoC 766900 c.3531T>C synonymous_variant 0.26
rpoC 766963 c.3594T>C synonymous_variant 0.19
rpoC 766972 c.3603G>C synonymous_variant 0.17
rpoC 766996 c.3627C>T synonymous_variant 0.23
rpoC 767009 c.3640_3642delTCGinsAGC synonymous_variant 0.18
rpoC 767014 c.3645G>C synonymous_variant 0.18
rpoC 767059 c.3690T>G synonymous_variant 0.27
rpoC 767062 c.3693C>A synonymous_variant 0.28
rpoC 767098 c.3729T>C synonymous_variant 0.2
rpoC 767119 c.3750A>G synonymous_variant 0.21
rpoC 767134 c.3765C>A synonymous_variant 0.23
rpoC 767158 c.3789T>C synonymous_variant 0.18
rpoC 767180 p.Ala1271Gln missense_variant 0.19
rpoC 767191 c.3822C>G synonymous_variant 0.21
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800648 c.-161A>T upstream_gene_variant 0.22
rplC 800654 c.-155T>C upstream_gene_variant 0.2
rplC 800693 c.-116A>G upstream_gene_variant 0.26
rplC 800715 c.-94A>C upstream_gene_variant 0.22
rplC 800720 c.-89T>C upstream_gene_variant 0.23
rplC 800723 c.-86C>G upstream_gene_variant 0.23
rplC 800747 c.-62C>G upstream_gene_variant 0.24
rplC 800771 c.-38C>T upstream_gene_variant 0.22
fbiC 1303836 c.906G>C synonymous_variant 0.19
fbiC 1303845 c.915C>G synonymous_variant 0.2
fbiC 1303846 p.Phe306Val missense_variant 0.2
Rv1258c 1406239 p.Gly368Ser missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.2
rrl 1473877 n.220G>A non_coding_transcript_exon_variant 0.26
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.35
rrl 1475419 n.1762C>T non_coding_transcript_exon_variant 0.31
rrl 1475429 n.1772G>A non_coding_transcript_exon_variant 0.32
rrl 1475436 n.1779C>T non_coding_transcript_exon_variant 0.32
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.35
rrl 1475599 n.1942A>G non_coding_transcript_exon_variant 0.32
rpsA 1833838 c.297G>C synonymous_variant 0.17
rpsA 1833874 c.333T>C synonymous_variant 0.16
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
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
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
rpoA 3877587 c.921A>G synonymous_variant 0.13
rpoA 3877857 c.651G>A synonymous_variant 0.18
clpC1 4040522 c.183T>C synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248157 c.1644A>G synonymous_variant 0.24
embB 4248172 c.1659G>C synonymous_variant 0.24
embB 4248199 c.1686A>G synonymous_variant 0.16
embB 4248200 p.Ile563Val missense_variant 0.16
embB 4248205 c.1692C>G synonymous_variant 0.17
embB 4248206 p.Ser565Gly missense_variant 0.18
embB 4248220 c.1707A>C synonymous_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0