TB-Profiler result

Run: ERR4815823
Summary

Run ID: ERR4815823

Sample name:

Date: 01-04-2023 14:05:02

Number of reads: 1084455

Percentage reads mapped: 98.78

Strain: lineage4.6.2.2

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
lineage4.6 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
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 isoniazid, 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7739 p.Asp146Glu missense_variant 0.13
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 761782 p.Gly659Asp missense_variant 0.15
rpoB 761837 c.2031C>T synonymous_variant 0.12
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
fbiC 1303792 p.Gln288Lys missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473044 n.1199C>G non_coding_transcript_exon_variant 1.0
rrs 1473051 n.1206T>C non_coding_transcript_exon_variant 1.0
rrs 1473053 n.1208T>G non_coding_transcript_exon_variant 1.0
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 1.0
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 1.0
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 1.0
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 1.0
rrs 1473097 n.1252G>C non_coding_transcript_exon_variant 1.0
rrs 1473099 n.1254T>A non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155389 c.723C>G synonymous_variant 1.0
Rv1979c 2221746 c.1416_1418dupCCG disruptive_inframe_insertion 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288901 p.Thr114Lys missense_variant 0.11
kasA 2519180 p.Val356Met missense_variant 0.11
folC 2746647 p.Gln318* stop_gained 0.17
folC 2747721 c.-123C>T upstream_gene_variant 0.2
ribD 2987438 c.600G>A synonymous_variant 0.18
Rv2752c 3064918 p.Asn425Ser missense_variant 0.11
thyX 3067474 p.Pro158Ala missense_variant 1.0
Rv3083 3448567 p.His22Asp missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.94
Rv3236c 3612571 c.546C>T synonymous_variant 1.0
Rv3236c 3612910 p.Leu69Phe missense_variant 1.0
alr 3840300 p.Pro374Arg missense_variant 0.11
clpC1 4038769 c.1936C>A synonymous_variant 0.18
panD 4044422 c.-141C>T upstream_gene_variant 0.12
embA 4242550 c.-683C>G upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245903 p.Ser891Pro missense_variant 0.11
embB 4247653 c.1143delA frameshift_variant 0.11
aftB 4267272 p.Lys522Arg missense_variant 1.0
ethA 4326180 p.Met432Val missense_variant 0.1
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