TB-Profiler result

Run: ERR4813319
Summary

Run ID: ERR4813319

Sample name:

Date: 01-04-2023 12:40:22

Number of reads: 802205

Percentage reads mapped: 99.35

Strain: lineage4

Drug-resistance: MDR-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
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
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
fabG1 1673425 c.-15C>T upstream_gene_variant 1.0 isoniazid, ethionamide
inhA 1674262 p.Ile21Val missense_variant 1.0 isoniazid
pncA 2289090 p.His51Arg missense_variant 1.0 pyrazinamide
embB 4247748 p.Ser412Leu missense_variant 0.5 ethambutol
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 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576114 p.Arg256Pro missense_variant 0.33
ccsA 619708 c.-183G>A upstream_gene_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 766487 p.Pro1040Ala missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777588 p.Ala298Glu missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305331 p.Glu801Lys missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473019 n.1174G>T non_coding_transcript_exon_variant 0.11
rrl 1475003 n.1346G>T non_coding_transcript_exon_variant 0.11
rrl 1475499 n.1842C>A non_coding_transcript_exon_variant 0.13
rpsA 1834683 p.Ala381Val missense_variant 1.0
rpsA 1834832 p.Gln431* stop_gained 0.2
rpsA 1834849 c.1308C>T synonymous_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448955 p.Pro151Gln missense_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474781 p.Glu259Lys missense_variant 0.4
fprA 3475149 c.1143C>A synonymous_variant 0.29
rpoA 3878208 p.Gln100His missense_variant 0.12
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039553 c.1152C>T synonymous_variant 0.14
embC 4240311 p.Pro150Gln missense_variant 0.2
embC 4240765 c.903C>A synonymous_variant 0.18
embC 4240783 c.921G>T synonymous_variant 0.2
embC 4240818 p.Thr319Ile missense_variant 0.15
embC 4242182 p.Ala774Ser missense_variant 1.0
embA 4243740 p.Val170Ile missense_variant 0.29
embB 4247323 c.810G>A synonymous_variant 0.22
embB 4247724 p.Pro404Leu missense_variant 0.5
embB 4249677 p.Arg1055Leu missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408153 p.Gly17Val missense_variant 0.25
gid 4408156 p.Leu16Arg missense_variant 1.0