TB-Profiler result

Run: SRR5818470

Summary

Run ID: SRR5818470

Sample name:

Date: 04-04-2023 11:34:52

Number of reads: 333750

Percentage reads mapped: 95.96

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 0.34 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 760907 c.1101C>T synonymous_variant 0.33
rpoB 760916 c.1110C>T synonymous_variant 0.33
rpoB 760919 c.1113C>T synonymous_variant 0.29
rpoB 760925 c.1119T>C synonymous_variant 0.29
rpoB 760928 c.1122G>C synonymous_variant 0.29
rpoB 760937 c.1131G>A synonymous_variant 0.38
rpoB 760940 c.1134G>C synonymous_variant 0.38
rrs 1472119 n.274G>A non_coding_transcript_exon_variant 0.58
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.94
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.98
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.97
rrs 1472282 n.437T>G non_coding_transcript_exon_variant 0.18
rrs 1472285 n.440A>G non_coding_transcript_exon_variant 0.49
rrs 1472286 n.441C>A non_coding_transcript_exon_variant 0.55
rrs 1472289 n.444T>G non_coding_transcript_exon_variant 0.56
rrs 1472290 n.445C>G non_coding_transcript_exon_variant 0.56
rrs 1472312 n.468_470delGAT non_coding_transcript_exon_variant 0.57
rrs 1472324 n.479G>C non_coding_transcript_exon_variant 0.59
rrs 1472325 n.480G>C non_coding_transcript_exon_variant 0.6
rrs 1472328 n.483G>T non_coding_transcript_exon_variant 0.57
rrs 1472330 n.485G>T non_coding_transcript_exon_variant 0.48
rrs 1472332 n.487A>G non_coding_transcript_exon_variant 0.17
rrs 1472338 n.493A>G non_coding_transcript_exon_variant 0.24
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.75
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.45
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.4
rrs 1472416 n.571C>T non_coding_transcript_exon_variant 0.25
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.2
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.78
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 0.79
rrs 1472439 n.594C>T non_coding_transcript_exon_variant 0.76
rrs 1472447 n.602C>T non_coding_transcript_exon_variant 0.76
rrs 1472448 n.603T>C non_coding_transcript_exon_variant 0.79
rrs 1472450 n.605A>G non_coding_transcript_exon_variant 0.78
rrs 1472451 n.606C>G non_coding_transcript_exon_variant 0.79
rrs 1472461 n.616G>C non_coding_transcript_exon_variant 0.77
rrs 1472462 n.617T>C non_coding_transcript_exon_variant 0.79
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.81
rrs 1472471 n.626G>A non_coding_transcript_exon_variant 0.79
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.48
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.91
rrs 1472496 n.651T>A non_coding_transcript_exon_variant 0.42
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.92
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.32
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.32
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.29
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.36
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.41
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.4
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.31
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.33
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.47
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.44
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.36
rrl 1475963 n.2306G>T non_coding_transcript_exon_variant 0.19
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.31
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.24
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.25
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 0.15
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.21
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.2
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.18
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.15
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.17
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.19
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.19
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.18
rrl 1476253 n.2596A>G non_coding_transcript_exon_variant 0.16
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.18
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.18
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.16
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918611 c.672C>T synonymous_variant 0.17
pncA 2289047 c.195C>T synonymous_variant 0.36
ahpC 2726184 c.-9A>C upstream_gene_variant 0.36
embB 4247646 p.Glu378Ala missense_variant 0.4
ethA 4326148 c.1326G>T synonymous_variant 0.69
ethA 4326439 p.Asn345Lys missense_variant 0.7
ethA 4326764 p.Ala237Val missense_variant 0.24
gid 4407588 c.615A>G synonymous_variant 0.99
gid 4407742 p.Arg154Pro missense_variant 0.51
gid 4407873 c.330G>T synonymous_variant 0.55