TB-Profiler result

Run: ERR4820028
Summary

Run ID: ERR4820028

Sample name:

Date: 01-04-2023 16:26:31

Number of reads: 4869323

Percentage reads mapped: 98.86

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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 1472733 n.888G>A non_coding_transcript_exon_variant 0.24 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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 1.0
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 1472150 n.305T>A non_coding_transcript_exon_variant 0.17
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.24
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.29
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.21
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.2
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.59
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.18
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.59
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.24
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.15
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.93
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.62
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.27
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.27
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.55
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.27
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.22
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.13
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.2
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.13
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.24
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.23
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.19
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.21
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.18
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.24
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.15
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.17
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.17
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.17
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.24
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.29
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.32
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.35
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.31
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.31
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.39
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.29
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.29
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.3
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.11
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.11
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.24
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.23
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.17
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.13
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.14
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.14
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 0.12
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.19
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.24
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.19
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.1
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.12
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.35
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.39
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.36
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.29
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.4
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.33
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.25
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.2
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.18
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.2
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.2
rpsA 1834836 p.Met432Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
Rv2752c 3065371 p.Arg274Thr missense_variant 1.0
thyX 3068150 c.-205C>G upstream_gene_variant 0.14
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248064 c.1551G>C synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0