TB-Profiler result

Run: SRR1208956
Summary

Run ID: SRR1208956

Sample name:

Date: 2024-05-17T15:04:45.264276

Number of reads: 6583

Percentage reads mapped: 0.39

Median coverage: 0.0

Strain: lineage4.9

Spoligotype:

Drug-resistance: Sensitive

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Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family RDs Frequency
lineage4 Euro-American None 1.0
lineage4.9 Euro-American (H37Rv-like) None 1.0
Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations WHO confidence Comment
rifampicin
isoniazid
ethambutol
pyrazinamide
streptomycin
fluoroquinolones
moxifloxacin
ofloxacin
levofloxacin
ciprofloxacin
aminoglycosides
amikacin
capreomycin
kanamycin
cycloserine
ethionamide
clofazimine
para-aminosalicylic_acid
delamanid
bedaquiline
linezolid
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 Confidence Comment
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 Drugs Confidence
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.82 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 1.0 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472128 n.283G>C non_coding_transcript_exon_variant 1.0 kanamycin
amikacin
streptomycin
capreomycin
rrs 1472129 n.284G>A non_coding_transcript_exon_variant 0.78 kanamycin
amikacin
streptomycin
capreomycin
rrs 1472150 n.305T>G non_coding_transcript_exon_variant 1.0 kanamycin
amikacin
streptomycin
capreomycin
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.63 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.95 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.9 kanamycin Uncertain significance
amikacin Not assoc w R
streptomycin Uncertain significance
capreomycin Not assoc w R
rrs 1472181 n.336G>A non_coding_transcript_exon_variant 0.58 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472223 n.378C>G non_coding_transcript_exon_variant 0.88 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.81 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Not assoc w R
rrs 1472228 n.383G>C non_coding_transcript_exon_variant 0.87 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472338 n.493A>C non_coding_transcript_exon_variant 0.92 kanamycin
amikacin
streptomycin
capreomycin
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 1.0 kanamycin Uncertain significance
amikacin Not assoc w R
streptomycin Uncertain significance
capreomycin Not assoc w R
rrs 1472379 n.534T>G non_coding_transcript_exon_variant 0.95 kanamycin Uncertain significance
amikacin Not assoc w R
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.87 kanamycin Uncertain significance
amikacin Not assoc w R
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472389 n.544G>A non_coding_transcript_exon_variant 0.87 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472396 n.551A>T non_coding_transcript_exon_variant 0.76 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472405 n.560C>T non_coding_transcript_exon_variant 0.83 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472518 n.673G>A non_coding_transcript_exon_variant 1.0 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.91 kanamycin Uncertain significance
amikacin Not assoc w R
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.92 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472544 n.699C>T non_coding_transcript_exon_variant 0.93 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.65 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472574 n.729T>A non_coding_transcript_exon_variant 0.77 kanamycin
amikacin
streptomycin
capreomycin
rrs 1472579 n.734G>A non_coding_transcript_exon_variant 0.95 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.57 kanamycin Uncertain significance
amikacin Not assoc w R
streptomycin Uncertain significance
capreomycin Not assoc w R
rrs 1472592 n.747C>T non_coding_transcript_exon_variant 0.51 kanamycin
amikacin
streptomycin
capreomycin
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 1.0 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.67 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.82 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 0.34 kanamycin
amikacin
streptomycin
capreomycin
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 1.0 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472719 n.874G>A non_coding_transcript_exon_variant 0.88 kanamycin
amikacin
streptomycin
capreomycin
rrs 1472733 n.888G>T non_coding_transcript_exon_variant 0.8 kanamycin
amikacin
streptomycin
capreomycin
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.81 kanamycin Uncertain significance
amikacin Not assoc w R
streptomycin Uncertain significance
capreomycin Not assoc w R
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.54 kanamycin Uncertain significance
amikacin Not assoc w R
streptomycin Uncertain significance
capreomycin Not assoc w R
rrs 1472742 n.897C>A non_coding_transcript_exon_variant 0.86 kanamycin
amikacin
streptomycin
capreomycin
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.98 kanamycin Uncertain significance
amikacin Not assoc w R
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.68 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.98 kanamycin Uncertain significance
amikacin Not assoc w R
streptomycin Uncertain significance
capreomycin Not assoc w R
rrs 1472786 n.941C>T non_coding_transcript_exon_variant 0.31 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.95 kanamycin Uncertain significance
amikacin Not assoc w R
streptomycin Uncertain significance
capreomycin Not assoc w R
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.89 kanamycin Uncertain significance
amikacin Not assoc w R
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.58 kanamycin Uncertain significance
amikacin Not assoc w R
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 1.0 kanamycin Uncertain significance
amikacin Not assoc w R
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1473020 n.1175T>C non_coding_transcript_exon_variant 0.46 kanamycin
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1473026 n.1181T>C non_coding_transcript_exon_variant 0.29 kanamycin Uncertain significance
amikacin Uncertain significance
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.94 kanamycin Uncertain significance
amikacin Not assoc w R
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.61 kanamycin Uncertain significance
amikacin Not assoc w R
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.46 kanamycin Uncertain significance
amikacin Not assoc w R
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 1.0 kanamycin Uncertain significance
amikacin Not assoc w R
streptomycin Uncertain significance
capreomycin Uncertain significance
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 1.0 kanamycin Uncertain significance
amikacin Not assoc w R
streptomycin Uncertain significance
capreomycin Uncertain significance
rrl 1474199 n.542G>C non_coding_transcript_exon_variant 0.62 capreomycin
linezolid
rrl 1474208 n.551C>T non_coding_transcript_exon_variant 0.57 capreomycin
linezolid
rrl 1474213 n.556G>A non_coding_transcript_exon_variant 0.54 capreomycin
linezolid
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.96 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474228 n.571T>G non_coding_transcript_exon_variant 1.0 capreomycin
linezolid
rrl 1474252 n.595T>A non_coding_transcript_exon_variant 1.0 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474557 n.900G>C non_coding_transcript_exon_variant 0.43 capreomycin
linezolid
rrl 1474563 n.906G>A non_coding_transcript_exon_variant 0.71 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474584 n.927C>G non_coding_transcript_exon_variant 1.0 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474586 n.929T>A non_coding_transcript_exon_variant 1.0 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1474594 n.937G>C non_coding_transcript_exon_variant 0.71 capreomycin
linezolid
rrl 1474597 n.940T>A non_coding_transcript_exon_variant 0.71 capreomycin
linezolid
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.45 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.91 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.97 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.61 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.77 capreomycin Uncertain significance
linezolid Uncertain significance
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.73 capreomycin Not assoc w R
linezolid Uncertain significance
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 1.0 capreomycin Not assoc w R
linezolid Uncertain significance