TB-Profiler result

Run: SRR5818462
Summary

Run ID: SRR5818462

Sample name:

Date: 04-04-2023 11:35:44

Number of reads: 309256

Percentage reads mapped: 99.53

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 0.39 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 0.38
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.97
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.93
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.9
rrs 1472282 n.437T>G non_coding_transcript_exon_variant 0.21
rrs 1472284 n.439C>T non_coding_transcript_exon_variant 0.19
rrs 1472286 n.441C>G non_coding_transcript_exon_variant 0.23
rrs 1472293 n.448C>A non_coding_transcript_exon_variant 0.21
rrs 1472298 n.453_465delGTCCGGGTTCTCT non_coding_transcript_exon_variant 0.23
rrs 1472325 n.480G>C non_coding_transcript_exon_variant 0.12
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.31
rrs 1472332 n.487A>G non_coding_transcript_exon_variant 0.33
rrs 1472333 n.488G>A non_coding_transcript_exon_variant 0.31
rrs 1472338 n.493A>G non_coding_transcript_exon_variant 0.42
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.55
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.54
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.49
rrs 1472412 n.567A>G non_coding_transcript_exon_variant 0.22
rrs 1472416 n.571C>T non_coding_transcript_exon_variant 0.42
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.37
rrs 1472427 n.582T>G non_coding_transcript_exon_variant 0.22
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.39
rrs 1472436 n.591G>T non_coding_transcript_exon_variant 0.25
rrs 1472437 n.592T>G non_coding_transcript_exon_variant 0.26
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 0.4
rrs 1472448 n.603T>C non_coding_transcript_exon_variant 0.36
rrs 1472449 n.604C>T non_coding_transcript_exon_variant 0.25
rrs 1472450 n.605A>C non_coding_transcript_exon_variant 0.29
rrs 1472451 n.606C>T non_coding_transcript_exon_variant 0.32
rrs 1472462 n.617T>G non_coding_transcript_exon_variant 0.32
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.42
rrs 1472473 n.628G>T non_coding_transcript_exon_variant 0.3
rrs 1472474 n.629C>G non_coding_transcript_exon_variant 0.3
rrs 1472476 n.631A>G non_coding_transcript_exon_variant 0.3
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.2
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.73
rrs 1472496 n.651T>A non_coding_transcript_exon_variant 0.62
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.77
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.42
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.78
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.74
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.5
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.42
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.39
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 0.4
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.78
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.78
rrs 1472690 n.845C>T non_coding_transcript_exon_variant 0.32
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.69
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 0.35
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.75
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.26
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.29
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.19
rrs 1472825 n.980G>A non_coding_transcript_exon_variant 0.21
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.19
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.26
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.27
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.27
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.24
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.28
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.25
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.26
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.29
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.28
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.29
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.29
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.24
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.28
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.25
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.12
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.13
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.17
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.15
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.14
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.42
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 0.23
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.19
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.2
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 0.16
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.18
rrl 1475993 n.2336C>T non_coding_transcript_exon_variant 0.15
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.21
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.24
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.26
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.28
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.27
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.32
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.34
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.36
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.27
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.25
rrl 1476253 n.2596A>G non_coding_transcript_exon_variant 0.23
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.25
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.25
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.24
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.16
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.16
rrl 1476297 n.2640C>A non_coding_transcript_exon_variant 0.16
rrl 1476299 n.2642C>G non_coding_transcript_exon_variant 0.15
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.15
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.16
rrl 1476308 n.2651G>C non_coding_transcript_exon_variant 0.16
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.16
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.17
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.21
tlyA 1917972 c.33A>G synonymous_variant 1.0
ahpC 2726184 c.-9A>C upstream_gene_variant 0.32
ahpC 2726269 p.Val26Gly missense_variant 0.25
ahpC 2726338 p.Val49Gly missense_variant 0.28
ahpC 2726341 p.Val50Gly missense_variant 0.38
ahpC 2726350 p.Trp53Leu missense_variant 0.18
embB 4247412 p.Asp300Gly missense_variant 0.17
ethA 4326764 p.Ala237Val missense_variant 0.31