TB-Profiler result

Run: SRR4037894

Summary

Run ID: SRR4037894

Sample name:

Date: 04-04-2023 07:45:09

Number of reads: 959293

Percentage reads mapped: 99.68

Strain: lineage4.3.2.1

Drug-resistance: HR-TB


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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.2 Euro-American (LAM) LAM3 None 1.0
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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
katG 2155168 p.Ser315Ile missense_variant 0.12 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
gyrB 5520 p.Pro94Leu missense_variant 1.0
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490616 c.-166delT upstream_gene_variant 0.11
fgd1 491318 p.Pro179Gln missense_variant 0.11
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
rplC 800948 p.Tyr47Cys missense_variant 0.14
Rv1258c 1407078 p.Gly88Asp missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
fabG1 1673236 c.-204G>A upstream_gene_variant 0.13
inhA 1673365 c.-837C>T upstream_gene_variant 0.13
rpsA 1833352 c.-190C>A upstream_gene_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102439 p.Arg202Trp missense_variant 0.14
ndh 2102564 p.Arg160Gln missense_variant 0.11
PPE35 2169866 c.747G>C synonymous_variant 0.22
Rv1979c 2221990 p.Ala392Asp missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746510 c.1089A>G synonymous_variant 0.13
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086977 p.Ala53Val missense_variant 0.13
ald 3087129 c.312delC frameshift_variant 0.2
fbiD 3339370 p.Pro85Ser missense_variant 0.11
Rv3083 3448889 p.Arg129Leu missense_variant 0.18
fprA 3473876 c.-131G>T upstream_gene_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3841444 c.-24G>A upstream_gene_variant 0.22
rpoA 3878167 p.Ala114Val missense_variant 0.13
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4268823 c.13delA frameshift_variant 0.12
ethA 4328338 c.-865G>A upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0