TB-Profiler result

Run: SRR13861302
Summary

Run ID: SRR13861302

Sample name:

Date: 03-04-2023 09:28:26

Number of reads: 169981

Percentage reads mapped: 5.67

Strain: lineage4.9

Drug-resistance: Sensitive

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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
lineage4.9 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
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
rpoB 761606 c.1800C>G synonymous_variant 0.2
rpoC 765319 c.1950A>G synonymous_variant 0.29
rpoC 765326 p.His653Ala missense_variant 0.22
rpoC 765330 p.Ser654Asn missense_variant 0.22
rpoC 765451 c.2082C>G synonymous_variant 0.2
rpoC 765452 p.Ala695Ser missense_variant 0.2
rpoC 765508 c.2139C>G synonymous_variant 0.22
rpoC 765541 c.2172C>G synonymous_variant 0.18
rpoC 765553 c.2184C>T synonymous_variant 0.2
rpoC 765556 c.2187G>C synonymous_variant 0.25
rpoC 765559 c.2190G>C synonymous_variant 0.25
rpoC 765613 p.His748Gln missense_variant 0.25
rpoC 765625 c.2256C>G synonymous_variant 0.29
rpoC 765628 c.2259G>C synonymous_variant 0.29
rpoC 765631 p.Asp754Glu missense_variant 0.29
rpoC 765658 c.2289C>T synonymous_variant 0.17
rpoC 765700 c.2331T>C synonymous_variant 0.17
rpoC 765734 c.2365T>C synonymous_variant 0.18
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
rrl 1474466 n.810delA non_coding_transcript_exon_variant 1.0
rrl 1475224 n.1567T>C non_coding_transcript_exon_variant 0.86
rrl 1475419 n.1762C>T non_coding_transcript_exon_variant 0.22
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 1.0
clpC1 4038611 c.2094C>T synonymous_variant 0.4
clpC1 4038623 c.2082A>G synonymous_variant 1.0
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