TB-Profiler result

Run: ERR4829333
Summary

Run ID: ERR4829333

Sample name:

Date: 01-04-2023 19:25:17

Number of reads: 2037704

Percentage reads mapped: 88.0

Strain: lineage4

Drug-resistance: RR-TB

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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
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
rpoB 761127 p.Ser441Ala missense_variant 0.12 rifampicin
rrs 1472644 n.799C>T non_coding_transcript_exon_variant 0.21 streptomycin
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.16 streptomycin
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.11 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 7730 p.Arg143Ser missense_variant 1.0
rpoB 761133 c.1327T>C synonymous_variant 0.1
rpoC 762902 c.-468C>T upstream_gene_variant 0.14
rpoC 762911 c.-459C>T upstream_gene_variant 0.14
rpoC 762917 c.-453C>T upstream_gene_variant 0.14
rpoC 762920 c.-450C>T upstream_gene_variant 0.14
rpoC 762929 c.-441G>T upstream_gene_variant 0.17
rpoC 762944 c.-426C>T upstream_gene_variant 0.14
rpoC 762956 c.-414G>C upstream_gene_variant 0.15
rpoC 764593 c.1224C>T synonymous_variant 0.16
rpoC 764602 c.1233C>T synonymous_variant 0.18
rpoC 764605 c.1236G>T synonymous_variant 0.21
rpoC 764611 c.1242G>T synonymous_variant 0.22
rpoC 764626 c.1257C>T synonymous_variant 0.21
rpoC 764635 c.1266C>T synonymous_variant 0.2
rpoC 764647 c.1278C>T synonymous_variant 0.19
rpoC 764650 c.1281G>T synonymous_variant 0.21
rpoC 764653 c.1284G>C synonymous_variant 0.18
rpoC 764656 c.1287C>G synonymous_variant 0.18
rpoC 764659 c.1290C>T synonymous_variant 0.18
rpoC 764665 c.1296C>T synonymous_variant 0.19
rpoC 764668 c.1299C>T synonymous_variant 0.19
rpoC 764671 c.1302G>T synonymous_variant 0.19
rpoC 764677 c.1308C>G synonymous_variant 0.19
rpoC 764678 p.Lys437Gln missense_variant 0.18
rpoC 764681 p.Leu438Met missense_variant 0.17
rpoC 764692 c.1323C>T synonymous_variant 0.22
rpoC 764706 p.Leu446Gln missense_variant 0.27
rpoC 764731 c.1362G>C synonymous_variant 0.26
rpoC 764737 c.1368G>T synonymous_variant 0.27
rpoC 764746 c.1377G>T synonymous_variant 0.16
mmpL5 775639 p.Ile948Val 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 1472102 n.257G>A non_coding_transcript_exon_variant 0.45
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.47
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.46
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.47
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.68
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.68
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.51
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.11
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.18
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.16
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.18
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.13
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.21
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.12
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.21
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.25
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.12
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.15
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.12
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.13
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.24
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.14
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.21
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.15
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.33
rrs 1472674 n.829T>G non_coding_transcript_exon_variant 0.22
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.15
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.2
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.13
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.28
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.12
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.17
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.15
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.38
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.11
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.29
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.11
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.22
rrs 1472825 n.980G>A non_coding_transcript_exon_variant 0.12
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.22
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.42
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.62
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.62
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.62
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.63
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.66
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.67
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.66
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.66
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.69
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.67
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.68
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.65
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.62
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.63
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.62
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.6
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.62
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.63
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.63
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 0.62
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.61
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.57
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.5
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.12
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.12
rrl 1474601 n.944C>T non_coding_transcript_exon_variant 0.1
rrl 1475722 n.2065G>T non_coding_transcript_exon_variant 0.14
rrl 1475751 n.2094C>T non_coding_transcript_exon_variant 0.18
rrl 1475752 n.2095C>T non_coding_transcript_exon_variant 0.16
rrl 1475753 n.2096C>G non_coding_transcript_exon_variant 0.15
rrl 1475757 n.2101_2104delACCC non_coding_transcript_exon_variant 0.16
rrl 1475769 n.2112T>C non_coding_transcript_exon_variant 0.13
rrl 1475775 n.2118G>T non_coding_transcript_exon_variant 0.15
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.1
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.11
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.11
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.11
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.15
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.11
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.18
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.12
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.24
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.11
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.14
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.24
rrl 1476253 n.2596A>G non_coding_transcript_exon_variant 0.23
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.23
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.11
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.38
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.25
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.23
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.23
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.22
rrl 1476297 n.2640C>A non_coding_transcript_exon_variant 0.22
rrl 1476299 n.2642C>G non_coding_transcript_exon_variant 0.22
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.22
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.23
rrl 1476308 n.2651G>C non_coding_transcript_exon_variant 0.24
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.24
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.25
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.57
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.75
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.81
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.75
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.76
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.7
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.64
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.42
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.18
rpsA 1833955 c.414G>T synonymous_variant 0.14
rpsA 1833970 c.429G>T synonymous_variant 0.17
rpsA 1833976 c.435C>T synonymous_variant 0.16
rpsA 1833979 c.438T>C synonymous_variant 0.18
rpsA 1833991 c.450C>A synonymous_variant 0.18
rpsA 1833994 c.453G>C synonymous_variant 0.17
rpsA 1833997 c.456G>C synonymous_variant 0.17
rpsA 1834000 c.459G>T synonymous_variant 0.16
rpsA 1834012 c.471G>C synonymous_variant 0.19
rpsA 1834015 c.474G>C synonymous_variant 0.19
rpsA 1834023 c.482_483insC frameshift_variant 0.18
rpsA 1834026 c.486delG frameshift_variant 0.19
rpsA 1834030 c.489C>T synonymous_variant 0.17
rpsA 1834039 c.498C>T synonymous_variant 0.16
rpsA 1834040 p.Lys167Gln missense_variant 0.18
rpsA 1834043 p.Glu168Gln missense_variant 0.18
rpsA 1834051 c.510G>A synonymous_variant 0.18
rpsA 1834054 c.513C>T synonymous_variant 0.21
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154980 c.1132C>T synonymous_variant 1.0
PPE35 2170811 c.-199C>T upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv3083 3449145 c.642G>A synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4268076 p.Met254Ala missense_variant 1.0
aftB 4268449 p.Pro130Ser missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0