TB-Profiler result

Run: ERR6197035
Summary

Run ID: ERR6197035

Sample name:

Date: 02-04-2023 01:49:57

Number of reads: 1745073

Percentage reads mapped: 95.33

Strain: lineage4.7

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
lineage4.7 Euro-American (mainly T) T1;T5 None 0.99
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 0.87 kanamycin, capreomycin, aminoglycosides, amikacin
rrs 1473329 n.1484G>T non_coding_transcript_exon_variant 0.83 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
rpoB 759620 c.-187A>C upstream_gene_variant 0.29
rpoC 762989 c.-381G>C upstream_gene_variant 0.1
rpoB 763005 p.Cys1067Gly missense_variant 0.11
rpoC 763468 c.99G>C synonymous_variant 0.11
rpoC 763483 c.114G>C synonymous_variant 0.11
rpoC 763534 c.165T>C synonymous_variant 0.1
rpoC 763546 c.177A>G synonymous_variant 0.11
rpoC 763550 p.Tyr61Ala missense_variant 0.11
rpoC 763570 c.201G>C synonymous_variant 0.12
rpoC 763573 c.204G>T synonymous_variant 0.11
rpoC 763578 p.Phe70Tyr missense_variant 0.13
rpoC 763594 c.225C>T synonymous_variant 0.12
rpoC 764611 c.1242G>T synonymous_variant 0.11
rpoC 764632 c.1263T>C synonymous_variant 0.1
rpoC 764650 c.1281G>T synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781443 c.-117T>G upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 1.0
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 1.0
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.67
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 1.0
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.67
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.67
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 1.0
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.75
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 1.0
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 1.0
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 1.0
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 1.0
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 1.0
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 1.0
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 1.0
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 1.0
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 1.0
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 1.0
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 1.0
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.83
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 1.0
rrs 1473270 n.1425G>A non_coding_transcript_exon_variant 0.83
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.9
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.94
rrs 1473305 n.1460G>T non_coding_transcript_exon_variant 0.84
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.94
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 1.0
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 1.0
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 1.0
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 1.0
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 1.0
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.83
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.89
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 1.0
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.89
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.89
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 1.0
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 1.0
rrl 1476262 n.2605G>A non_coding_transcript_exon_variant 0.89
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.91
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 1.0
rrl 1476298 n.2641C>A non_coding_transcript_exon_variant 1.0
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 1.0
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 1.0
rrl 1476307 n.2650A>T non_coding_transcript_exon_variant 1.0
rrl 1476309 n.2652G>T non_coding_transcript_exon_variant 1.0
rrl 1476322 n.2665C>A non_coding_transcript_exon_variant 0.15
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.12
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.12
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.14
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.21
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.36
rrl 1476368 n.2711T>C non_coding_transcript_exon_variant 0.18
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.27
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.2
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.56
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.25
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.33
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.29
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.25
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.86
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.3
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.67
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.83
rpsA 1834294 c.753G>C synonymous_variant 0.1
rpsA 1834298 p.Gln253Glu missense_variant 0.1
rpsA 1834306 c.765T>C synonymous_variant 0.14
rpsA 1834312 c.771G>A synonymous_variant 0.12
rpsA 1834327 c.786G>T synonymous_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170675 c.-63G>C upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714892 c.441G>T synonymous_variant 0.11
pepQ 2859961 p.Ala153Gly missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249732 c.3219C>G synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0