TB-Profiler result

Run: SRR3675291

Summary

Run ID: SRR3675291

Sample name:

Date: 19-10-2023 18:30:08

Number of reads: 2415331

Percentage reads mapped: 94.56

Strain: lineage4.6

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
lineage4.6 Euro-American T;LAM 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
mshA 575434 c.87C>T synonymous_variant 1.0
rpoC 763644 p.Met92Thr missense_variant 0.99
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.67
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.67
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.64
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.58
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.73
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.82
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.75
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.73
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.9
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.64
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.64
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.5
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.5
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.6
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.38
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.38
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.5
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.53
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.53
rrs 1473101 n.1256C>T non_coding_transcript_exon_variant 0.4
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.53
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.53
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.53
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.56
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.6
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.44
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.55
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.46
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.41
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.41
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.73
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.73
rrl 1474801 n.1144G>A non_coding_transcript_exon_variant 0.6
rrl 1474802 n.1145T>C non_coding_transcript_exon_variant 0.55
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.7
rrl 1475715 n.2058G>C non_coding_transcript_exon_variant 0.55
rrl 1475756 n.2099T>C non_coding_transcript_exon_variant 0.7
rrl 1475760 n.2103_2107delCCGCAinsACCCCCTGCG non_coding_transcript_exon_variant 0.55
rrl 1475765 n.2108A>G non_coding_transcript_exon_variant 0.58
rrl 1475767 n.2110G>T non_coding_transcript_exon_variant 0.46
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.5
rrl 1475896 n.2239A>G non_coding_transcript_exon_variant 0.46
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.69
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.69
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 0.5
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.75
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.64
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.64
rrl 1475945 n.2288C>A non_coding_transcript_exon_variant 0.43
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.64
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.38
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.35
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.42
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.35
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.5
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.45
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.47
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.53
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.5
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.5
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.33
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.48
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.43
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.5
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.53
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.47
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.55
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.55
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.56
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.62
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.6
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.64
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168080 p.Thr845Ala missense_variant 1.0
PPE35 2170198 p.Ala139Thr missense_variant 1.0
PPE35 2170792 c.-180T>C upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860360 p.Asp20Gly missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612698 p.Leu140Arg missense_variant 0.47
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244970 c.1738C>T synonymous_variant 1.0
aftB 4267118 c.1719G>A synonymous_variant 0.99
whiB6 4338595 c.-75delG upstream_gene_variant 1.0