TB-Profiler result

Run: SRR5818466
Summary

Run ID: SRR5818466

Sample name:

Date: 04-04-2023 11:33:25

Number of reads: 253884

Percentage reads mapped: 94.25

Strain: lineage4.9

Drug-resistance: Other

Download CSV Download TXT Download PDF Download JSON
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 0.64 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 1471985 n.140T>C non_coding_transcript_exon_variant 0.45
rrs 1471986 n.141C>T non_coding_transcript_exon_variant 0.46
rrs 1472027 n.183_189delACGGGAT non_coding_transcript_exon_variant 0.36
rrs 1472037 n.192_193insCTTTAG non_coding_transcript_exon_variant 0.5
rrs 1472057 n.212C>T non_coding_transcript_exon_variant 0.49
rrs 1472061 n.216A>T non_coding_transcript_exon_variant 0.49
rrs 1472062 n.217G>T non_coding_transcript_exon_variant 0.49
rrs 1472069 n.224G>A non_coding_transcript_exon_variant 0.54
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.74
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.75
rrs 1472123 n.278A>G non_coding_transcript_exon_variant 0.27
rrs 1472138 n.293C>A non_coding_transcript_exon_variant 0.27
rrs 1472147 n.302G>T non_coding_transcript_exon_variant 0.27
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.91
rrs 1472150 n.305T>G non_coding_transcript_exon_variant 0.84
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.28
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.35
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.65
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.45
rrs 1472278 n.433C>T non_coding_transcript_exon_variant 0.66
rrs 1472279 n.434T>C non_coding_transcript_exon_variant 0.66
rrs 1472285 n.440A>G non_coding_transcript_exon_variant 0.87
rrs 1472289 n.444T>G non_coding_transcript_exon_variant 0.88
rrs 1472290 n.445C>G non_coding_transcript_exon_variant 0.87
rrs 1472324 n.479G>C non_coding_transcript_exon_variant 0.87
rrs 1472325 n.480G>C non_coding_transcript_exon_variant 0.85
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.97
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.84
rrs 1472431 n.586G>A non_coding_transcript_exon_variant 0.86
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.98
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 0.98
rrs 1472439 n.594C>T non_coding_transcript_exon_variant 0.97
rrs 1472447 n.602C>T non_coding_transcript_exon_variant 0.97
rrs 1472448 n.603T>C non_coding_transcript_exon_variant 0.98
rrs 1472452 n.607G>A non_coding_transcript_exon_variant 0.9
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.98
rrs 1472471 n.626G>A non_coding_transcript_exon_variant 0.98
rrs 1472484 n.639A>T non_coding_transcript_exon_variant 0.95
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.87
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.99
rrs 1472504 n.659A>T non_coding_transcript_exon_variant 0.87
rrs 1472505 n.660G>A non_coding_transcript_exon_variant 0.87
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.48
rrs 1472571 n.726G>T non_coding_transcript_exon_variant 0.19
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.38
rrs 1472574 n.729T>A non_coding_transcript_exon_variant 0.4
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.35
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.78
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.21
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.61
rrs 1472612 n.767G>T non_coding_transcript_exon_variant 0.46
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.48
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 0.29
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.24
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.76
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.52
rrs 1472690 n.845C>T non_coding_transcript_exon_variant 0.59
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.2
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.58
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.79
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.4
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.45
rrl 1475945 n.2288C>A non_coding_transcript_exon_variant 0.31
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.36
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.27
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.21
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.23
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.19
rrl 1476179 n.2522C>T non_coding_transcript_exon_variant 0.22
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.28
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.28
rrl 1476207 n.2550T>C non_coding_transcript_exon_variant 0.2
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 0.21
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.29
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.22
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 0.92
ahpC 2726184 c.-9A>C upstream_gene_variant 0.51
ahpC 2726338 p.Val49Gly missense_variant 0.26
gid 4407588 c.615A>G synonymous_variant 0.93