TB-Profiler result

Run: SRR5818437
Summary

Run ID: SRR5818437

Sample name:

Date: 04-04-2023 11:29:38

Number of reads: 227995

Percentage reads mapped: 98.14

Strain: lineage4.9

Drug-resistance: MDR-TB

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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
rpoB 761155 p.Ser450Leu missense_variant 0.39 rifampicin
rrs 1472644 n.799C>T non_coding_transcript_exon_variant 0.23 streptomycin
katG 2155168 p.Ser315Thr missense_variant 0.29 isoniazid
embB 4247431 p.Met306Ile missense_variant 0.5 ethambutol
gid 4407605 c.597delC frameshift_variant 0.62 streptomycin
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 0.98
rrs 1472119 n.274G>A non_coding_transcript_exon_variant 0.48
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.95
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.95
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.93
rrs 1472282 n.437T>G non_coding_transcript_exon_variant 0.24
rrs 1472284 n.439C>T non_coding_transcript_exon_variant 0.23
rrs 1472286 n.441C>G non_coding_transcript_exon_variant 0.29
rrs 1472293 n.448C>A non_coding_transcript_exon_variant 0.27
rrs 1472297 n.453_465delGTCCGGGTTCTCT non_coding_transcript_exon_variant 0.27
rrs 1472315 n.470T>G non_coding_transcript_exon_variant 0.27
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.32
rrs 1472332 n.487A>G non_coding_transcript_exon_variant 0.26
rrs 1472333 n.488G>A non_coding_transcript_exon_variant 0.26
rrs 1472338 n.493A>G non_coding_transcript_exon_variant 0.28
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.44
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.48
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.56
rrs 1472412 n.567A>G non_coding_transcript_exon_variant 0.23
rrs 1472416 n.571C>T non_coding_transcript_exon_variant 0.5
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.45
rrs 1472427 n.582T>G non_coding_transcript_exon_variant 0.19
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.28
rrs 1472436 n.591G>T non_coding_transcript_exon_variant 0.28
rrs 1472437 n.592T>G non_coding_transcript_exon_variant 0.29
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 0.28
rrs 1472448 n.603T>C non_coding_transcript_exon_variant 0.32
rrs 1472449 n.604C>T non_coding_transcript_exon_variant 0.29
rrs 1472450 n.605A>C non_coding_transcript_exon_variant 0.31
rrs 1472451 n.606C>T non_coding_transcript_exon_variant 0.31
rrs 1472462 n.617T>G non_coding_transcript_exon_variant 0.3
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.34
rrs 1472473 n.628G>T non_coding_transcript_exon_variant 0.33
rrs 1472474 n.629C>G non_coding_transcript_exon_variant 0.33
rrs 1472476 n.631A>G non_coding_transcript_exon_variant 0.33
rrs 1472484 n.639A>T non_coding_transcript_exon_variant 0.19
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.2
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.69
rrs 1472496 n.651T>A non_coding_transcript_exon_variant 0.62
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.7
rrs 1472513 n.668T>C non_coding_transcript_exon_variant 0.22
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.26
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.49
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.35
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.31
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.27
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 0.36
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.55
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.53
rrs 1472686 n.841G>T non_coding_transcript_exon_variant 0.31
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.33
rrs 1472690 n.845C>T non_coding_transcript_exon_variant 0.28
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.43
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 0.3
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.46
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.19
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.17
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.15
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.2
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.2
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.22
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.17
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.17
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.19
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.16
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 0.99
tlyA 1918739 p.Gly267Asp missense_variant 0.24
ahpC 2726184 c.-9A>C upstream_gene_variant 0.52
ethA 4326764 p.Ala237Val missense_variant 0.2