TB-Profiler result

Run: ERR4829428
Summary

Run ID: ERR4829428

Sample name:

Date: 01-04-2023 19:28:46

Number of reads: 2810821

Percentage reads mapped: 99.79

Strain: lineage4.6.2.2

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
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.2 Euro-American T;LAM RD726 1.0
lineage4.6.2.2 Euro-American (Cameroon) LAM10-CAM RD726 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 778298 c.-692C>T upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472292 n.447A>G non_coding_transcript_exon_variant 0.11
rrs 1472522 n.677T>C non_coding_transcript_exon_variant 0.12
rrl 1473768 n.114delT non_coding_transcript_exon_variant 0.17
rrl 1474101 n.444C>A non_coding_transcript_exon_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155389 c.723C>G synonymous_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.12
Rv1979c 2221746 c.1416_1418dupCCG disruptive_inframe_insertion 0.97
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289448 c.-207G>A upstream_gene_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.16
thyX 3067474 p.Pro158Ala missense_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.33
fbiD 3339746 p.Ala210Gly missense_variant 0.25
Rv3083 3448567 p.His22Asp missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568428 c.252A>T synonymous_variant 0.12
Rv3236c 3612571 c.546C>T synonymous_variant 1.0
rpoA 3878637 c.-130G>A upstream_gene_variant 1.0
ddn 3986681 c.-163C>T upstream_gene_variant 1.0
embA 4242550 c.-683C>G upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.33
embB 4248324 p.Ala604Gly missense_variant 0.27
aftB 4267272 p.Lys522Arg missense_variant 1.0
ethR 4326739 c.-810G>C upstream_gene_variant 1.0
ethA 4328004 c.-531C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407986 p.Gly73Arg missense_variant 1.0