TB-Profiler result

Run: ERR4821165

Summary

Run ID: ERR4821165

Sample name:

Date: 01-04-2023 17:05:47

Number of reads: 851990

Percentage reads mapped: 99.5

Strain: lineage4.3.2.1

Drug-resistance: Sensitive


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
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 6277 c.1038C>T synonymous_variant 0.12
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 8412 p.Asp371Tyr missense_variant 0.14
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9470 c.2169G>A synonymous_variant 0.1
fgd1 491569 p.Asp263Asn missense_variant 0.11
rpoC 763435 c.66delA frameshift_variant 0.11
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775926 c.2554delC frameshift_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.5
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.5
rrs 1472825 n.980G>A non_coding_transcript_exon_variant 0.5
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.5
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102540 p.Ala168Gly missense_variant 0.22
PPE35 2170407 p.Ala69Val missense_variant 0.14
PPE35 2170412 c.201G>T synonymous_variant 0.12
PPE35 2170415 c.198A>C synonymous_variant 0.12
PPE35 2170425 p.Val63Ala missense_variant 0.12
Rv1979c 2222191 p.Arg325Pro missense_variant 0.15
Rv1979c 2222257 p.Ile303Thr missense_variant 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289336 c.-95G>T upstream_gene_variant 0.17
Rv2752c 3064866 c.1326G>T synonymous_variant 0.11
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086997 p.Thr60Gly missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642746 c.1212C>T synonymous_variant 0.14
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4268913 c.-77A>G upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0