TB-Profiler result

Run: SRR5818425
Summary

Run ID: SRR5818425

Sample name:

Date: 04-04-2023 11:27:26

Number of reads: 574552

Percentage reads mapped: 99.08

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 0.7 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 0.99
rrs 1472119 n.274G>A non_coding_transcript_exon_variant 0.58
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.96
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.97
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.94
rrs 1472282 n.437T>G non_coding_transcript_exon_variant 0.35
rrs 1472284 n.439C>T non_coding_transcript_exon_variant 0.32
rrs 1472285 n.440A>G non_coding_transcript_exon_variant 0.14
rrs 1472286 n.441C>G non_coding_transcript_exon_variant 0.4
rrs 1472289 n.444T>G non_coding_transcript_exon_variant 0.21
rrs 1472290 n.445C>G non_coding_transcript_exon_variant 0.21
rrs 1472293 n.448C>A non_coding_transcript_exon_variant 0.34
rrs 1472297 n.453_465delGTCCGGGTTCTCT non_coding_transcript_exon_variant 0.36
rrs 1472324 n.479G>C non_coding_transcript_exon_variant 0.25
rrs 1472325 n.480G>C non_coding_transcript_exon_variant 0.25
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.5
rrs 1472330 n.485G>T non_coding_transcript_exon_variant 0.16
rrs 1472332 n.487A>G non_coding_transcript_exon_variant 0.43
rrs 1472333 n.488G>A non_coding_transcript_exon_variant 0.42
rrs 1472338 n.493A>G non_coding_transcript_exon_variant 0.45
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.72
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.49
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.36
rrs 1472416 n.571C>T non_coding_transcript_exon_variant 0.24
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.16
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.65
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 0.65
rrs 1472439 n.594C>T non_coding_transcript_exon_variant 0.63
rrs 1472447 n.602C>T non_coding_transcript_exon_variant 0.64
rrs 1472448 n.603T>C non_coding_transcript_exon_variant 0.67
rrs 1472450 n.605A>G non_coding_transcript_exon_variant 0.67
rrs 1472451 n.606C>G non_coding_transcript_exon_variant 0.66
rrs 1472461 n.616G>C non_coding_transcript_exon_variant 0.65
rrs 1472462 n.617T>C non_coding_transcript_exon_variant 0.67
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.69
rrs 1472471 n.626G>A non_coding_transcript_exon_variant 0.67
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.38
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.82
rrs 1472496 n.651T>A non_coding_transcript_exon_variant 0.44
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.85
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.81
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.85
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.77
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.75
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.7
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.69
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.57
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.59
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.32
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.42
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.39
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.36
rrl 1475963 n.2306G>T non_coding_transcript_exon_variant 0.35
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.28
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.26
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.26
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 0.26
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.24
rrl 1475993 n.2336C>T non_coding_transcript_exon_variant 0.23
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.2
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.2
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.19
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.25
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.22
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.21
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.2
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.35
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.36
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.35
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.33
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.34
rrl 1476253 n.2596A>G non_coding_transcript_exon_variant 0.33
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.33
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.33
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.3
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.25
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.25
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.24
rrl 1476297 n.2640C>A non_coding_transcript_exon_variant 0.24
rrl 1476299 n.2642C>G non_coding_transcript_exon_variant 0.24
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.23
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.24
rrl 1476308 n.2651G>C non_coding_transcript_exon_variant 0.23
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.25
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.26
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 0.96
ahpC 2726184 c.-9A>C upstream_gene_variant 0.24
ethA 4326764 p.Ala237Val missense_variant 0.27
gid 4407588 c.615A>G synonymous_variant 0.98