TB-Profiler result

Run: SRR6855789
Summary

Run ID: SRR6855789

Sample name:

Date: 04-04-2023 17:45:44

Number of reads: 389481

Percentage reads mapped: 99.58

Strain: lineage4.3.2.1

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
lineage4.3 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
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
mshA 576439 c.1092G>A synonymous_variant 0.11
rpoC 764627 p.Lys420* stop_gained 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765976 c.2608delT frameshift_variant 0.13
rpoC 766231 c.2862T>C synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304225 p.Gly432Val missense_variant 0.11
fbiC 1305243 c.2313T>C synonymous_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrl 1474277 n.620C>T non_coding_transcript_exon_variant 0.1
rrl 1476611 n.2954T>C non_coding_transcript_exon_variant 0.1
inhA 1674589 p.Met130Leu missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155020 c.1092C>T synonymous_variant 0.1
katG 2155968 c.144G>A synonymous_variant 0.11
PPE35 2170535 c.78G>C synonymous_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289702 c.-461T>C upstream_gene_variant 0.12
kasA 2518756 c.642G>A synonymous_variant 0.13
eis 2714814 c.519C>T synonymous_variant 0.1
folC 2747443 c.156G>A synonymous_variant 0.12
Rv2752c 3066253 c.-62C>T upstream_gene_variant 0.11
Rv2752c 3067129 c.-938G>A upstream_gene_variant 0.17
thyX 3067958 c.-13T>C upstream_gene_variant 0.12
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087369 p.Ala184Thr missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474119 p.Met38Thr missense_variant 0.1
fbiA 3641285 p.Gly248Asp missense_variant 0.29
fbiA 3641422 p.Asp294Asn missense_variant 0.1
fbiA 3641477 c.938delC frameshift_variant 0.12
fbiB 3641664 p.Asp44His missense_variant 0.11
clpC1 4038167 c.2538C>T synonymous_variant 0.13
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4241971 c.2109T>C synonymous_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244988 p.Ala586Pro missense_variant 0.11
embB 4248484 c.1971C>T synonymous_variant 0.12
aftB 4268352 p.Leu162Pro missense_variant 0.11
aftB 4268813 c.24G>T synonymous_variant 0.12
ubiA 4269661 p.Ala58Val missense_variant 0.15
aftB 4269729 c.-893G>C upstream_gene_variant 0.15
ubiA 4269916 c.-83G>A upstream_gene_variant 0.12
ethA 4327923 c.-450C>T upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0