TB-Profiler result

Run: SRR5818394
Summary

Run ID: SRR5818394

Sample name:

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

Number of reads: 227932

Percentage reads mapped: 94.61

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 0.24 streptomycin
gid 4408092 c.110delG frameshift_variant 0.31 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 0.94
rrs 1471923 n.78T>C non_coding_transcript_exon_variant 0.21
rrs 1471929 n.84C>G non_coding_transcript_exon_variant 0.21
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.17
rrs 1472119 n.274G>A non_coding_transcript_exon_variant 0.35
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.7
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.26
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.3
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.93
rrs 1472225 n.380C>G non_coding_transcript_exon_variant 0.34
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.96
rrs 1472285 n.440A>G non_coding_transcript_exon_variant 0.8
rrs 1472286 n.441C>A non_coding_transcript_exon_variant 0.82
rrs 1472289 n.444T>G non_coding_transcript_exon_variant 0.82
rrs 1472290 n.445C>G non_coding_transcript_exon_variant 0.82
rrs 1472297 n.453_461delGTCCGGGTT non_coding_transcript_exon_variant 0.83
rrs 1472309 n.464C>T non_coding_transcript_exon_variant 0.82
rrs 1472311 n.466C>T non_coding_transcript_exon_variant 0.81
rrs 1472312 n.468_470delGAT non_coding_transcript_exon_variant 0.83
rrs 1472324 n.479G>C non_coding_transcript_exon_variant 0.84
rrs 1472325 n.480G>C non_coding_transcript_exon_variant 0.84
rrs 1472328 n.483G>T non_coding_transcript_exon_variant 0.84
rrs 1472330 n.485G>T non_coding_transcript_exon_variant 0.81
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.88
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.18
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.94
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 0.94
rrs 1472439 n.594C>T non_coding_transcript_exon_variant 0.9
rrs 1472447 n.602C>T non_coding_transcript_exon_variant 0.91
rrs 1472448 n.603T>C non_coding_transcript_exon_variant 0.94
rrs 1472450 n.605A>G non_coding_transcript_exon_variant 0.94
rrs 1472451 n.606C>G non_coding_transcript_exon_variant 0.94
rrs 1472461 n.616G>C non_coding_transcript_exon_variant 0.91
rrs 1472462 n.617T>C non_coding_transcript_exon_variant 0.94
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.95
rrs 1472471 n.626G>A non_coding_transcript_exon_variant 0.92
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.87
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.96
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.97
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.25
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.4
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.37
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.27
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 0.35
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.42
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.52
rrs 1472686 n.841G>T non_coding_transcript_exon_variant 0.34
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.44
rrs 1472690 n.845C>T non_coding_transcript_exon_variant 0.4
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.35
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 0.25
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.16
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.51
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.19
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.17
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.17
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.14
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.16
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.2
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.18
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.16
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.17
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.2
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.2
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.15
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.19
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.36
rrl 1475945 n.2288C>A non_coding_transcript_exon_variant 0.23
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.33
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.33
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.24
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.28
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.24
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.19
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.19
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.21
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.23
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.21
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.17
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.17
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.16
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.21
rrl 1476583 n.2926G>C non_coding_transcript_exon_variant 0.18
rrl 1476595 n.2938C>A non_coding_transcript_exon_variant 0.21
rrl 1476602 n.2945G>T non_coding_transcript_exon_variant 0.19
rrl 1476608 n.2951C>A non_coding_transcript_exon_variant 0.2
rrl 1476624 n.2967T>A non_coding_transcript_exon_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
ahpC 2726184 c.-9A>C upstream_gene_variant 0.35
embB 4247646 p.Glu378Ala missense_variant 0.4
ethA 4326148 c.1326G>T synonymous_variant 0.34
ethA 4326439 p.Asn345Lys missense_variant 0.31
ethA 4326764 p.Ala237Val missense_variant 0.28
gid 4407588 c.615A>G synonymous_variant 0.36
gid 4407742 p.Arg154Pro missense_variant 0.17
gid 4407873 c.330G>T synonymous_variant 0.17