TB-Profiler result

Run: DRR184902
Summary

Run ID: DRR184902

Sample name:

Date: 21-10-2023 03:32:25

Number of reads: 1516946

Percentage reads mapped: 91.18

Strain: lineage4.8;lineage2.2.1

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
lineage2 East-Asian Beijing RD105 0.08
lineage4 Euro-American LAM;T;S;X;H None 0.95
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.1
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.87
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.07
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 0.13
fgd1 491742 c.960T>C synonymous_variant 0.15
rpoC 763031 c.-339T>C upstream_gene_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.15
mmpS5 779615 c.-710C>G upstream_gene_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406789 c.552C>T synonymous_variant 0.91
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.93
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.17
rrl 1476229 n.2572C>G non_coding_transcript_exon_variant 0.17
rrl 1476251 n.2594T>G non_coding_transcript_exon_variant 0.26
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.26
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.28
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.31
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.28
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.28
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.28
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.27
rrl 1476297 n.2640C>A non_coding_transcript_exon_variant 0.27
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.28
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.28
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.28
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.28
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.3
rrl 1476353 n.2696G>A non_coding_transcript_exon_variant 0.27
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.27
rrl 1476359 n.2702C>T non_coding_transcript_exon_variant 0.28
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.27
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.27
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.2
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.18
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.2
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.19
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.16
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.19
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.16
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.21
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.19
rrl 1476513 n.2856G>A non_coding_transcript_exon_variant 0.14
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.17
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.16
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.16
rrl 1476528 n.2871A>G non_coding_transcript_exon_variant 0.14
rrl 1476544 n.2887T>C non_coding_transcript_exon_variant 0.13
rrl 1476545 n.2888C>T non_coding_transcript_exon_variant 0.13
rrl 1476566 n.2909A>G non_coding_transcript_exon_variant 0.1
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.13
inhA 1673868 c.-334C>G upstream_gene_variant 0.85
rpsA 1834177 c.636A>C synonymous_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 0.13
alr 3840764 c.657G>C synonymous_variant 0.91
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 0.11