TB-Profiler result

Run: ERR161047

Summary

Run ID: ERR161047

Sample name:

Date: 24-01-2024 12:24:49

Number of reads: 7309434

Percentage reads mapped: 85.07

Strain: lineage4.4.1.1

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
lineage4.4 Euro-American S;T None 0.98
lineage4.4.1 Euro-American (S-type) S;T None 0.99
lineage4.4.1.1 Euro-American S;Orphans None 0.99
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 0.99
gyrA 9304 p.Gly668Asp missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777416 c.1065G>T synonymous_variant 0.98
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302857 c.-74G>A upstream_gene_variant 0.99
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472733 n.888G>C non_coding_transcript_exon_variant 0.11
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.11
rrs 1472742 n.897C>G non_coding_transcript_exon_variant 0.1
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.1
rrl 1474804 n.1147C>T non_coding_transcript_exon_variant 0.15
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.21
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.22
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.24
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.25
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.22
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.2
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.15
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.14
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.14
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.13
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.14
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.14
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.14
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.14
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.14
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.13
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.14
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.13
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.14
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.14
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.25
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.28
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.35
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.35
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.42
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.45
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.44
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.51
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.52
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.52
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.36
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.24
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.18
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.17
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.17
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.17
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.16
rrl 1476603 n.2946G>A non_coding_transcript_exon_variant 0.15
rrl 1476608 n.2951C>A non_coding_transcript_exon_variant 0.15
rrl 1476614 n.2957A>G non_coding_transcript_exon_variant 0.15
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.16
rrl 1476624 n.2967T>G non_coding_transcript_exon_variant 0.15
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.16
rrl 1476630 n.2973A>G non_coding_transcript_exon_variant 0.15
rrl 1476637 n.2980C>G non_coding_transcript_exon_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 0.99
ndh 2102990 p.Val18Ala missense_variant 0.99
PPE35 2168479 p.Thr712Pro missense_variant 0.99
PPE35 2169840 p.Gly258Asp missense_variant 0.99
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 0.98
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568779 c.-100T>C upstream_gene_variant 0.98
Rv3236c 3612665 p.Val151Ala missense_variant 0.98
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0