TB-Profiler result

Run: ERR3276144
Summary

Run ID: ERR3276144

Sample name:

Date: 11-08-2022 15:03:57

Number of reads: 4653548

Percentage reads mapped: 99.97

Strain: lineage3

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
lineage3 East-African-Indian CAS RD750 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 1473247 n.1402C>A non_coding_transcript_exon_variant 0.22 kanamycin, capreomycin, aminoglycosides, amikacin
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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9596 c.2295G>T synonymous_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 0.98
rpoC 763031 c.-339T>C upstream_gene_variant 0.91
rpoC 764181 p.Asp271Gly missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.16
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.22
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.31
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.31
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.32
rrs 1472225 n.380C>G non_coding_transcript_exon_variant 0.19
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.17
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.17
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.19
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.2
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.19
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.2
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.16
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.11
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.12
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.13
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.25
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.29
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.3
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.28
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.22
rrs 1473132 n.1287T>C non_coding_transcript_exon_variant 0.1
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.16
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.18
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.21
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.22
rrl 1474174 n.517A>G non_coding_transcript_exon_variant 0.16
rrl 1474186 n.529A>T non_coding_transcript_exon_variant 0.16
rrl 1474201 n.544T>G non_coding_transcript_exon_variant 0.16
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.14
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.21
rrl 1474803 n.1146G>A non_coding_transcript_exon_variant 0.25
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.25
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.25
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.25
rrl 1474825 n.1168G>A non_coding_transcript_exon_variant 0.25
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.27
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.25
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.15
rrl 1474901 n.1244A>G non_coding_transcript_exon_variant 0.16
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.15
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.15
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.26
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.25
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.25
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.22
rrl 1475900 n.2243A>G non_coding_transcript_exon_variant 0.22
rrl 1475902 n.2245T>C non_coding_transcript_exon_variant 0.22
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.23
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.12
rrl 1476049 n.2392C>G non_coding_transcript_exon_variant 0.12
rrl 1476076 n.2419A>G non_coding_transcript_exon_variant 0.16
rrl 1476099 n.2442A>G non_coding_transcript_exon_variant 0.11
rrl 1476100 n.2443A>C non_coding_transcript_exon_variant 0.11
rrl 1476113 n.2456T>G non_coding_transcript_exon_variant 0.17
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.23
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.24
rrl 1476165 n.2508T>A non_coding_transcript_exon_variant 0.23
rrl 1476188 n.2531C>T non_coding_transcript_exon_variant 0.25
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.24
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.24
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.24
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.28
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.32
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.3
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.26
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.23
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.24
rrl 1476267 n.2610G>T non_coding_transcript_exon_variant 0.25
rrl 1476276 n.2619C>A non_coding_transcript_exon_variant 0.28
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.27
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.23
rrl 1476297 n.2640C>G non_coding_transcript_exon_variant 0.24
rrl 1476298 n.2641C>G non_coding_transcript_exon_variant 0.23
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.23
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.23
rrl 1476309 n.2652G>C non_coding_transcript_exon_variant 0.28
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.31
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.19
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.17
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102632 c.411C>T synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170769 c.-157C>T upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0