TB-Profiler result

Run: SRR5818400
Summary

Run ID: SRR5818400

Sample name:

Date: 04-04-2023 11:21:42

Number of reads: 659590

Percentage reads mapped: 99.78

Strain: lineage4.9

Drug-resistance: Other

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
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
lineage4.9 Euro-American (H37Rv-like) T1 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
rrs 1472644 n.799C>T non_coding_transcript_exon_variant 0.17 streptomycin
ethA 4326444 c.1029dupG frameshift_variant 0.99 ethionamide, ethionamide
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 7585 p.Ser95Thr missense_variant 1.0
rplC 801093 c.285C>T synonymous_variant 0.22
rrs 1471860 n.15T>C non_coding_transcript_exon_variant 0.4
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.5
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.22
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.27
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.71
rrs 1472225 n.380C>G non_coding_transcript_exon_variant 0.29
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.66
rrs 1472285 n.440A>G non_coding_transcript_exon_variant 0.32
rrs 1472286 n.441C>A non_coding_transcript_exon_variant 0.32
rrs 1472289 n.444T>G non_coding_transcript_exon_variant 0.34
rrs 1472290 n.445C>G non_coding_transcript_exon_variant 0.34
rrs 1472297 n.453_461delGTCCGGGTT non_coding_transcript_exon_variant 0.35
rrs 1472309 n.464C>T non_coding_transcript_exon_variant 0.33
rrs 1472311 n.466C>T non_coding_transcript_exon_variant 0.31
rrs 1472312 n.468_470delGAT non_coding_transcript_exon_variant 0.31
rrs 1472324 n.479G>C non_coding_transcript_exon_variant 0.36
rrs 1472325 n.480G>C non_coding_transcript_exon_variant 0.37
rrs 1472328 n.483G>T non_coding_transcript_exon_variant 0.35
rrs 1472330 n.485G>T non_coding_transcript_exon_variant 0.35
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.48
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.69
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 0.7
rrs 1472439 n.594C>T non_coding_transcript_exon_variant 0.68
rrs 1472447 n.602C>T non_coding_transcript_exon_variant 0.69
rrs 1472448 n.603T>C non_coding_transcript_exon_variant 0.71
rrs 1472450 n.605A>G non_coding_transcript_exon_variant 0.71
rrs 1472451 n.606C>G non_coding_transcript_exon_variant 0.71
rrs 1472461 n.616G>C non_coding_transcript_exon_variant 0.71
rrs 1472462 n.617T>C non_coding_transcript_exon_variant 0.73
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.73
rrs 1472471 n.626G>A non_coding_transcript_exon_variant 0.75
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.7
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.82
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.82
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.24
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.38
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.36
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.23
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 0.3
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.28
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.36
rrs 1472686 n.841G>T non_coding_transcript_exon_variant 0.15
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.2
rrs 1472690 n.845C>T non_coding_transcript_exon_variant 0.19
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.2
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 0.17
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.28
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.12
rrl 1476164 n.2507A>T non_coding_transcript_exon_variant 0.16
rrl 1476179 n.2522C>T non_coding_transcript_exon_variant 0.16
rrl 1476194 n.2537A>T non_coding_transcript_exon_variant 0.13
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.15
rrl 1476207 n.2550T>C non_coding_transcript_exon_variant 0.12
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.15
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.16
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.14
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.12
fabG1 1673770 p.Ala111Pro missense_variant 0.24
tlyA 1917972 c.33A>G synonymous_variant 1.0
ahpC 2726184 c.-9A>C upstream_gene_variant 0.19