TB-Profiler result

Run: ERR4829917
Summary

Run ID: ERR4829917

Sample name:

Date: 01-04-2023 19:45:43

Number of reads: 2990583

Percentage reads mapped: 96.46

Strain: lineage4.7

Drug-resistance: HR-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
lineage4.7 Euro-American (mainly T) T1;T5 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
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.12 kanamycin, capreomycin, aminoglycosides, amikacin
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 isoniazid, ethionamide
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
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 1472815 n.970A>G non_coding_transcript_exon_variant 0.13
rrs 1472880 n.1035G>A non_coding_transcript_exon_variant 0.13
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.13
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.12
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.12
rrs 1472969 n.1124A>G non_coding_transcript_exon_variant 0.11
rrs 1472970 n.1125C>G non_coding_transcript_exon_variant 0.11
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.11
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.1
rrl 1474294 n.637C>G non_coding_transcript_exon_variant 1.0
rrl 1474476 n.819C>G non_coding_transcript_exon_variant 0.13
rrl 1474483 n.826C>G non_coding_transcript_exon_variant 0.12
rrl 1474527 n.870T>C non_coding_transcript_exon_variant 0.12
rrl 1474528 n.871T>A non_coding_transcript_exon_variant 0.12
rrl 1474529 n.872A>G non_coding_transcript_exon_variant 0.12
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.16
rrl 1474540 n.883T>C non_coding_transcript_exon_variant 0.12
rrl 1474541 n.884G>T non_coding_transcript_exon_variant 0.12
rrl 1474542 n.885A>G non_coding_transcript_exon_variant 0.12
rrl 1474551 n.894G>C non_coding_transcript_exon_variant 0.13
rrl 1474558 n.901G>T non_coding_transcript_exon_variant 0.12
rrl 1474583 n.926C>T non_coding_transcript_exon_variant 0.24
rrl 1474752 n.1096delA non_coding_transcript_exon_variant 0.12
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.21
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.25
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.25
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.25
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.25
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.25
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.25
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.21
rrl 1476401 n.2744T>A non_coding_transcript_exon_variant 0.12
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.19
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156011 p.Gly34Glu missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747468 p.Asp44Gly missense_variant 1.0
whiB7 3568645 p.Arg12Lys missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249732 c.3219C>G synonymous_variant 1.0
aftB 4268203 c.634C>T synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408125 p.Leu26Phe missense_variant 0.98