TB-Profiler result

Run: ERR4815757
Summary

Run ID: ERR4815757

Sample name:

Date: 01-04-2023 14:02:43

Number of reads: 879135

Percentage reads mapped: 95.75

Strain: lineage4.3.4.2

Drug-resistance: Other

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
lineage4.3.4 Euro-American (LAM) LAM RD174 1.0
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.12 streptomycin
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 6817 c.-485G>A 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 576477 p.Leu377Pro missense_variant 0.2
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304378 p.Leu483Pro missense_variant 0.18
fbiC 1304950 p.Asp674Asn missense_variant 0.17
Rv1258c 1406638 p.Val235Ile missense_variant 0.21
embR 1416982 c.366C>T synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.13
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.13
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.15
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.15
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.15
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.12
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918173 c.234G>A synonymous_variant 0.14
tlyA 1918554 c.615G>T synonymous_variant 0.18
ndh 2101954 c.1089G>A synonymous_variant 0.16
PPE35 2170005 p.Ile203Thr missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 0.96
folC 2746675 c.924C>T synonymous_variant 0.15
folC 2747680 c.-82C>T upstream_gene_variant 1.0
pepQ 2859925 p.Pro165Leu missense_variant 0.13
ribD 2986732 c.-107C>T upstream_gene_variant 0.12
thyX 3067616 c.330C>A synonymous_variant 0.17
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339145 p.Ile10Phe missense_variant 0.13
fbiD 3339204 c.87G>A synonymous_variant 0.12
fbiD 3339369 c.252A>G synonymous_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
Rv3236c 3612140 p.Ala326Val missense_variant 0.29
Rv3236c 3612844 c.273G>A synonymous_variant 0.18
Rv3236c 3613180 c.-64A>G upstream_gene_variant 0.17
fbiB 3641625 p.Ala31Thr missense_variant 0.18
fbiB 3642324 p.Arg264Cys missense_variant 0.12
alr 3841150 p.Val91Ile missense_variant 0.14
rpoA 3877784 p.Asp242Asn missense_variant 0.14
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039516 p.Asp397Asn missense_variant 0.14
clpC1 4040144 c.561G>C synonymous_variant 0.17
embC 4239763 c.-100C>T upstream_gene_variant 1.0
embC 4239840 c.-23C>T upstream_gene_variant 0.12
embC 4241842 c.1980G>A synonymous_variant 0.25
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243946 c.714C>T synonymous_variant 0.13
embA 4244946 p.Val572Met missense_variant 0.2
embA 4245222 p.Tyr664His missense_variant 0.12
aftB 4268447 c.390G>A synonymous_variant 0.12
aftB 4268490 p.Ile116Asn missense_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0