TB-Profiler result

Run: SRR5818391
Summary

Run ID: SRR5818391

Sample name:

Date: 04-04-2023 11:17:04

Number of reads: 320191

Percentage reads mapped: 83.03

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 1472307 n.462C>T non_coding_transcript_exon_variant 0.31 streptomycin
rrs 1472644 n.799C>T non_coding_transcript_exon_variant 0.51 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
rpoB 760294 p.Asn163Ile missense_variant 0.41
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.78
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.67
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.48
rrs 1472278 n.433C>T non_coding_transcript_exon_variant 0.25
rrs 1472279 n.434T>C non_coding_transcript_exon_variant 0.25
rrs 1472285 n.440A>G non_coding_transcript_exon_variant 0.31
rrs 1472289 n.444T>G non_coding_transcript_exon_variant 0.32
rrs 1472290 n.445C>G non_coding_transcript_exon_variant 0.32
rrs 1472296 n.454_458delTCCGG non_coding_transcript_exon_variant 0.32
rrs 1472303 n.458G>C non_coding_transcript_exon_variant 0.31
rrs 1472324 n.479G>C non_coding_transcript_exon_variant 0.35
rrs 1472325 n.480G>C non_coding_transcript_exon_variant 0.36
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.45
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.46
rrs 1472431 n.586G>A non_coding_transcript_exon_variant 0.52
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.54
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 0.55
rrs 1472439 n.594C>T non_coding_transcript_exon_variant 0.54
rrs 1472447 n.602C>T non_coding_transcript_exon_variant 0.56
rrs 1472448 n.603T>C non_coding_transcript_exon_variant 0.57
rrs 1472452 n.607G>A non_coding_transcript_exon_variant 0.55
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.59
rrs 1472471 n.626G>A non_coding_transcript_exon_variant 0.59
rrs 1472484 n.639A>T non_coding_transcript_exon_variant 0.54
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.53
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.67
rrs 1472504 n.659A>T non_coding_transcript_exon_variant 0.45
rrs 1472505 n.660G>A non_coding_transcript_exon_variant 0.45
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.2
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.52
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.4
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.27
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.36
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.54
rrs 1472612 n.767G>T non_coding_transcript_exon_variant 0.18
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.19
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.44
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.54
rrs 1472690 n.845C>T non_coding_transcript_exon_variant 0.19
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.34
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.45
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.16
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.31
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.42
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.32
rrl 1475963 n.2306G>T non_coding_transcript_exon_variant 0.23
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.24
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.2
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.2
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 0.2
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.19
rrl 1475993 n.2336C>T non_coding_transcript_exon_variant 0.18
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.17
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.17
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.17
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.25
rrl 1476164 n.2507A>T non_coding_transcript_exon_variant 0.28
rrl 1476179 n.2522C>T non_coding_transcript_exon_variant 0.26
rrl 1476194 n.2537A>T non_coding_transcript_exon_variant 0.26
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.34
rrl 1476204 n.2547C>T non_coding_transcript_exon_variant 0.24
rrl 1476207 n.2550T>C non_coding_transcript_exon_variant 0.23
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.37
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.38
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.4
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.19
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.38
rrl 1476253 n.2596A>G non_coding_transcript_exon_variant 0.19
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.38
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.36
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.28
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.14
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.14
rrl 1476299 n.2642C>G non_coding_transcript_exon_variant 0.13
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
ahpC 2726184 c.-9A>C upstream_gene_variant 0.32
embC 4239705 c.-158T>C upstream_gene_variant 0.67
ethA 4326764 p.Ala237Val missense_variant 0.28