TB-Profiler result

Run: ERR4816569
Summary

Run ID: ERR4816569

Sample name:

Date: 20-10-2023 08:08:15

Number of reads: 3725979

Percentage reads mapped: 96.29

Strain: lineage4.3.3

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
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 761880 p.Ala692Thr missense_variant 1.0
rpoB 762233 c.2427G>C synonymous_variant 0.1
rpoB 762266 c.2460T>C synonymous_variant 0.1
rpoC 763022 c.-348C>A upstream_gene_variant 0.12
rpoC 763031 c.-339T>C upstream_gene_variant 0.11
rpoC 764995 c.1626C>G synonymous_variant 1.0
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 1472151 n.306C>A non_coding_transcript_exon_variant 0.62
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.56
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.67
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 1.0
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.82
rrs 1472958 n.1113A>G non_coding_transcript_exon_variant 0.65
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.76
rrs 1472988 n.1143T>C non_coding_transcript_exon_variant 0.59
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.59
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.55
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.71
rrs 1473089 n.1244A>T non_coding_transcript_exon_variant 0.57
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.7
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.7
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.7
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.67
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.67
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 0.65
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.67
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.67
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.6
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.63
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.62
rrl 1474197 n.540C>T non_coding_transcript_exon_variant 0.6
rrl 1474199 n.542G>T non_coding_transcript_exon_variant 0.6
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 1.0
rrl 1474798 n.1141C>A non_coding_transcript_exon_variant 0.92
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.92
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.55
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.55
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.55
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.5
rrl 1475900 n.2243A>G non_coding_transcript_exon_variant 0.46
rrl 1475902 n.2245T>C non_coding_transcript_exon_variant 0.5
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 0.48
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.56
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.68
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.68
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.82
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.82
rrl 1476267 n.2610G>T non_coding_transcript_exon_variant 0.9
rrl 1476276 n.2619C>A non_coding_transcript_exon_variant 0.9
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.9
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.88
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.82
rrl 1476524 n.2867_2868delCAinsT non_coding_transcript_exon_variant 0.82
rrl 1476534 n.2877A>T non_coding_transcript_exon_variant 0.76
rrl 1476535 n.2878G>A non_coding_transcript_exon_variant 0.82
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.88
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.88
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.75
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.73
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154459 c.1653C>T synonymous_variant 0.99
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_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 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407720 c.483C>G synonymous_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.99