TB-Profiler result

Run: SRR4037604

Summary

Run ID: SRR4037604

Sample name:

Date: 04-04-2023 07:32:23

Number of reads: 958066

Percentage reads mapped: 99.61

Strain: lineage4.3.2.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 0.99
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
tlyA 1918398 c.460delG frameshift_variant 0.13 capreomycin
ethA 4326984 c.489delT frameshift_variant 0.11 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
gyrB 5520 p.Pro94Leu missense_variant 1.0
gyrB 6124 c.888dupG frameshift_variant 0.11
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
mshA 575820 p.Ser158Leu missense_variant 0.13
rpoB 761546 p.Met580Ile missense_variant 0.25
rpoB 761901 p.Gly699Ser missense_variant 0.33
rpoC 762419 c.-951C>A upstream_gene_variant 0.12
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 800905 p.Pro33Ser missense_variant 0.13
fbiC 1304088 c.1158C>T synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
inhA 1673484 c.-718C>A upstream_gene_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.36
Rv1979c 2222925 c.238_239dupGC frameshift_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519303 p.Ala397Thr missense_variant 0.13
ahpC 2726338 p.Val49Gly missense_variant 0.14
folC 2746742 p.Tyr286Phe missense_variant 0.2
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448965 c.462C>A synonymous_variant 0.15
fprA 3473898 c.-109C>T upstream_gene_variant 0.1
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642140 c.606C>T synonymous_variant 0.18
alr 3840876 p.Ala182Val missense_variant 0.12
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039564 p.Ala381Thr missense_variant 0.12
embC 4242117 p.Ala752Val missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243989 p.Ala253Thr missense_variant 0.18
embA 4245649 p.Ile806Thr missense_variant 0.12
aftB 4267745 c.1092G>A synonymous_variant 0.25
aftB 4268886 c.-50G>A upstream_gene_variant 0.14
ubiA 4269605 p.Asp77Asn missense_variant 0.14
ethR 4328090 p.Arg181Pro missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0