TB-Profiler result

Run: SRR13837497
Summary

Run ID: SRR13837497

Sample name:

Date: 03-04-2023 09:11:46

Number of reads: 587737

Percentage reads mapped: 99.01

Strain: lineage4.9

Drug-resistance: Other

Download CSV Download TXT Download PDF Download JSON
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
lineage4.9 Euro-American (H37Rv-like) T1 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 1472733 n.888G>A non_coding_transcript_exon_variant 0.14 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
gyrB 5149 c.-91G>C upstream_gene_variant 1.0
gyrB 7090 p.Asp617Glu missense_variant 1.0
gyrA 8436 p.Tyr379Asn missense_variant 1.0
fgd1 491701 p.His307Asn missense_variant 1.0
ccsA 619765 c.-126G>A upstream_gene_variant 1.0
mmpL5 775867 p.Arg872Gly missense_variant 1.0
mmpL5 776710 p.Cys591Ser missense_variant 1.0
mmpL5 777625 p.Gln286Lys missense_variant 1.0
mmpS5 778811 p.Phe32Ser missense_variant 1.0
embR 1416901 c.447G>C synonymous_variant 1.0
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.14
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.14
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.15
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.15
rrs 1472669 n.824_825insTAGG non_coding_transcript_exon_variant 0.14
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.14
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.14
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.14
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.15
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.14
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.14
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.12
rrl 1474466 n.810delA non_coding_transcript_exon_variant 1.0
rrl 1475224 n.1567T>C non_coding_transcript_exon_variant 1.0
rrl 1476589 n.2932G>A non_coding_transcript_exon_variant 1.0
PPE35 2170487 c.126T>A synonymous_variant 1.0
Rv1979c 2221853 p.Phe438Ile missense_variant 1.0
ribD 2987369 c.531G>A synonymous_variant 1.0
thyA 3073975 p.Arg166Pro missense_variant 1.0
Rv3236c 3612013 c.1104A>T synonymous_variant 1.0
Rv3236c 3612032 p.Met362Arg missense_variant 0.95
embC 4240425 p.Arg188Pro missense_variant 1.0
embC 4240477 c.615C>A synonymous_variant 1.0
embA 4244214 p.Ala328Ser missense_variant 1.0
embA 4244849 c.1617C>G synonymous_variant 1.0
embB 4247198 p.Thr229Pro missense_variant 1.0
embB 4247381 p.Trp290Arg missense_variant 1.0
aftB 4268115 p.Leu241Arg missense_variant 1.0
aftB 4268696 c.141G>A synonymous_variant 1.0
ethA 4326298 c.1176G>A synonymous_variant 1.0
whiB6 4338567 c.-46C>A upstream_gene_variant 1.0