TB-Profiler result

Run: SRR5818422
Summary

Run ID: SRR5818422

Sample name:

Date: 04-04-2023 11:25:15

Number of reads: 579653

Percentage reads mapped: 98.4

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 0.69 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
rplC 801094 p.Gln96Glu missense_variant 0.43
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.98
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.99
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.97
rrs 1472282 n.437T>G non_coding_transcript_exon_variant 0.83
rrs 1472284 n.439C>T non_coding_transcript_exon_variant 0.81
rrs 1472286 n.441C>G non_coding_transcript_exon_variant 0.82
rrs 1472293 n.448C>A non_coding_transcript_exon_variant 0.81
rrs 1472297 n.453_465delGTCCGGGTTCTCT non_coding_transcript_exon_variant 0.82
rrs 1472315 n.470T>G non_coding_transcript_exon_variant 0.73
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.83
rrs 1472332 n.487A>G non_coding_transcript_exon_variant 0.86
rrs 1472333 n.488G>A non_coding_transcript_exon_variant 0.87
rrs 1472338 n.493A>G non_coding_transcript_exon_variant 0.88
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.9
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.91
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.88
rrs 1472416 n.571C>T non_coding_transcript_exon_variant 0.8
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.75
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.15
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.12
rrs 1472476 n.631A>G non_coding_transcript_exon_variant 0.42
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.85
rrs 1472496 n.651T>A non_coding_transcript_exon_variant 0.84
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.87
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.73
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.76
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.74
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.74
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.7
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.68
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.49
rrs 1472674 n.829T>G non_coding_transcript_exon_variant 0.48
rrs 1472675 n.830T>A non_coding_transcript_exon_variant 0.47
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.48
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.52
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.55
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.35
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.43
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.44
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.34
rrl 1475963 n.2306G>T non_coding_transcript_exon_variant 0.28
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.24
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.21
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.22
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 0.19
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.19
rrl 1475993 n.2336C>T non_coding_transcript_exon_variant 0.17
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.21
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.22
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.22
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.19
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.25
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.27
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.28
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.24
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.22
rrl 1476253 n.2596A>G non_coding_transcript_exon_variant 0.21
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.23
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.22
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.2
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.15
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.15
rrl 1476299 n.2642C>G non_coding_transcript_exon_variant 0.14
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.15
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.16
tlyA 1917972 c.33A>G synonymous_variant 1.0
ahpC 2726184 c.-9A>C upstream_gene_variant 0.46
embB 4247646 p.Glu378Ala missense_variant 1.0
ethA 4326148 c.1326G>T synonymous_variant 1.0
ethA 4326439 p.Asn345Lys missense_variant 1.0
ethA 4326764 p.Ala237Val missense_variant 0.23
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407742 p.Arg154Pro missense_variant 1.0
gid 4407873 c.330G>T synonymous_variant 1.0