TB-Profiler result

Run: ERR2515364
Summary

Run ID: ERR2515364

Sample name:

Date: 20-10-2023 14:00:17

Number of reads: 877079

Percentage reads mapped: 94.15

Strain: lineage4.1.2

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H 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
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417140 p.Ala70Ser missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.23
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.24
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.24
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.27
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.27
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.37
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.36
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.36
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.36
rrs 1472669 n.824_825insTAGG non_coding_transcript_exon_variant 0.39
rrs 1472678 n.833_834delTTinsGCC non_coding_transcript_exon_variant 0.38
rrs 1472684 n.839_845delGGGATCCinsA non_coding_transcript_exon_variant 0.38
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.38
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.4
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.43
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.44
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.42
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.43
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.43
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.36
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.31
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.29
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.19
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.17
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.18
rrs 1472836 n.991G>C non_coding_transcript_exon_variant 0.13
rrs 1472837 n.992_993insTCTG non_coding_transcript_exon_variant 0.13
rrs 1472841 n.996_1003delGGACGCGTinsACC non_coding_transcript_exon_variant 0.14
rrs 1472861 n.1016G>T non_coding_transcript_exon_variant 0.15
rrs 1472873 n.1028C>A non_coding_transcript_exon_variant 0.14
rrs 1472875 n.1030T>A non_coding_transcript_exon_variant 0.15
rrs 1472877 n.1032T>A non_coding_transcript_exon_variant 0.13
rrs 1472880 n.1035_1036insA non_coding_transcript_exon_variant 0.13
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.2
fabG1 1673249 c.-191C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747022 p.Val193Ile missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448894 p.Tyr131Asp missense_variant 1.0
Rv3083 3449458 p.Asp319Asn missense_variant 1.0
Rv3083 3449642 p.Asn380Ser missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3641164 p.Ile208Val missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
aftB 4268861 c.-25T>C upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0