TB-Profiler result

Run: ERR3132168
Summary

Run ID: ERR3132168

Sample name:

Date: 01-04-2023 00:26:52

Number of reads: 541477

Percentage reads mapped: 99.66

Strain: lineage4.3.2

Drug-resistance: MDR-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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.2 Euro-American (LAM) LAM3 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 761155 p.Ser450Trp missense_variant 1.0 rifampicin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
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
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776173 p.Asp770Asn missense_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrs 1472969 n.1124A>G non_coding_transcript_exon_variant 0.14
rrs 1472970 n.1125C>G non_coding_transcript_exon_variant 0.14
rrs 1472977 n.1132G>C non_coding_transcript_exon_variant 0.14
rrs 1472978 n.1133T>C non_coding_transcript_exon_variant 0.17
rrs 1473105 n.1260G>A non_coding_transcript_exon_variant 0.2
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.29
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.44
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.41
rrl 1474618 n.961T>C non_coding_transcript_exon_variant 0.11
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.39
rrl 1476031 n.2374C>T non_coding_transcript_exon_variant 0.19
rrl 1476032 n.2375C>A non_coding_transcript_exon_variant 0.19
rrl 1476033 n.2376T>C non_coding_transcript_exon_variant 0.19
rrl 1476034 n.2377C>A non_coding_transcript_exon_variant 0.25
rrl 1476045 n.2388G>T non_coding_transcript_exon_variant 0.2
rrl 1476047 n.2390G>T non_coding_transcript_exon_variant 0.2
rrl 1476048 n.2391G>A non_coding_transcript_exon_variant 0.2
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.2
rrl 1476086 n.2429G>A non_coding_transcript_exon_variant 0.48
rrl 1476089 n.2432T>C non_coding_transcript_exon_variant 0.48
rrl 1476095 n.2438C>G non_coding_transcript_exon_variant 0.48
rrl 1476115 n.2458T>C non_coding_transcript_exon_variant 0.52
rrl 1476117 n.2460G>C non_coding_transcript_exon_variant 0.54
rrl 1476214 n.2557G>A non_coding_transcript_exon_variant 0.43
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.52
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.48
rrl 1476583 n.2926G>A non_coding_transcript_exon_variant 0.1
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.11
fabG1 1673346 c.-94C>G upstream_gene_variant 0.11
fabG1 1673349 c.-91G>C upstream_gene_variant 0.12
fabG1 1673357 c.-83G>A upstream_gene_variant 0.19
fabG1 1673359 c.-81T>C upstream_gene_variant 0.19
fabG1 1673361 c.-79C>G upstream_gene_variant 0.19
fabG1 1673380 c.-60C>G upstream_gene_variant 0.31
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169994 p.Leu207Val missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715474 c.-142T>C upstream_gene_variant 0.14
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448428 c.-75delC upstream_gene_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3841441 c.-21C>A upstream_gene_variant 1.0
ddn 3986943 p.Gly34Arg missense_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338600 c.-79T>G upstream_gene_variant 1.0
whiB6 4338602 c.-81A>T upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0