TB-Profiler result

Run: SRR5818409
Summary

Run ID: SRR5818409

Sample name:

Date: 04-04-2023 11:24:00

Number of reads: 490402

Percentage reads mapped: 98.91

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 0.2 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 1.0
rrs 1472119 n.274G>A non_coding_transcript_exon_variant 0.23
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.9
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.9
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.88
rrs 1472282 n.437T>G non_coding_transcript_exon_variant 0.34
rrs 1472284 n.439C>T non_coding_transcript_exon_variant 0.34
rrs 1472286 n.441C>G non_coding_transcript_exon_variant 0.34
rrs 1472293 n.448C>A non_coding_transcript_exon_variant 0.34
rrs 1472297 n.453_465delGTCCGGGTTCTCT non_coding_transcript_exon_variant 0.34
rrs 1472315 n.470T>G non_coding_transcript_exon_variant 0.31
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.32
rrs 1472332 n.487A>G non_coding_transcript_exon_variant 0.33
rrs 1472333 n.488G>A non_coding_transcript_exon_variant 0.33
rrs 1472338 n.493A>G non_coding_transcript_exon_variant 0.36
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.38
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.38
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.28
rrs 1472416 n.571C>T non_coding_transcript_exon_variant 0.19
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.18
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.14
rrs 1472476 n.631A>G non_coding_transcript_exon_variant 0.15
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.46
rrs 1472496 n.651T>A non_coding_transcript_exon_variant 0.43
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.51
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.19
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.2
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.22
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.23
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.2
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.14
rrs 1472674 n.829T>G non_coding_transcript_exon_variant 0.18
rrs 1472675 n.830T>A non_coding_transcript_exon_variant 0.14
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.18
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.17
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.13
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.12
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.12
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 0.85
ahpC 2726184 c.-9A>C upstream_gene_variant 0.36
ethA 4326764 p.Ala237Val missense_variant 0.34
gid 4407588 c.615A>G synonymous_variant 0.99