TB-Profiler result

Run: ERR10370892
Summary

Run ID: ERR10370892

Sample name:

Date: 31-03-2023 10:14:09

Number of reads: 256115

Percentage reads mapped: 99.77

Strain: lineage4.9

Drug-resistance: Other

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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
lineage4.9 Euro-American (H37Rv-like) T1 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
ethA 4327304 p.Ser57Tyr missense_variant 0.17 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
gyrB 5831 p.Ala198Pro missense_variant 0.33
fgd1 490740 c.-43G>A upstream_gene_variant 0.12
mshA 575247 c.-101T>A upstream_gene_variant 0.18
mshA 575303 c.-45G>C upstream_gene_variant 0.2
ccsA 619831 c.-60T>G upstream_gene_variant 0.3
ccsA 620425 p.Val179Leu missense_variant 0.12
rpoB 760695 p.Glu297Gln missense_variant 0.13
rpoB 761201 p.Glu465Asp missense_variant 0.14
rpoB 761634 p.Val610Leu missense_variant 0.1
rpoB 762426 p.Ser874Thr missense_variant 0.12
rpoB 762915 p.Ala1037Ser missense_variant 0.25
rpoB 763001 p.Met1065Ile missense_variant 0.18
rpoC 763664 p.Ala99Ser missense_variant 0.12
rpoC 765031 p.Glu554Asp missense_variant 0.14
mmpL5 776615 c.1866G>A synonymous_variant 0.12
mmpL5 776691 p.Cys597Tyr missense_variant 0.17
mmpL5 777051 p.Gly477Ala missense_variant 0.12
rplC 800663 c.-146G>A upstream_gene_variant 0.12
fbiC 1303287 c.357C>A synonymous_variant 0.22
fbiC 1303990 c.1064delG frameshift_variant 0.11
fbiC 1304267 p.Arg446Gln missense_variant 0.14
fbiC 1304976 p.Lys682Asn missense_variant 0.14
embR 1417426 c.-79T>A upstream_gene_variant 0.11
atpE 1461065 c.21C>T synonymous_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476709 n.3052C>G non_coding_transcript_exon_variant 0.25
rpsA 1834810 c.1269C>A synonymous_variant 0.15
PPE35 2167705 c.2908T>C synonymous_variant 0.22
PPE35 2167977 p.Phe879Ser missense_variant 0.18
PPE35 2168113 p.Phe834Leu missense_variant 0.22
Rv1979c 2222357 p.Thr270Ala missense_variant 0.25
Rv1979c 2223171 c.-7T>A upstream_gene_variant 0.17
Rv1979c 2223325 c.-161G>T upstream_gene_variant 0.18
pncA 2288966 c.276G>A synonymous_variant 0.18
eis 2714653 p.Arg227Gln missense_variant 0.12
folC 2746470 p.Gly377Arg missense_variant 0.15
folC 2746926 c.672delC frameshift_variant 0.22
ribD 2987152 p.His105Arg missense_variant 0.12
thyA 3074333 p.Thr47Ser missense_variant 0.4
fbiD 3339365 p.Pro83Leu missense_variant 0.25
fprA 3474551 p.Ala182Val missense_variant 0.22
Rv3236c 3612117 p.Gly334Trp missense_variant 0.25
Rv3236c 3612255 p.Val288Ile missense_variant 0.17
Rv3236c 3612276 p.Ser281Pro missense_variant 0.17
Rv3236c 3612750 p.Gly123Trp missense_variant 0.25
Rv3236c 3613306 c.-190G>T upstream_gene_variant 0.18
fbiB 3642266 c.732G>C synonymous_variant 0.22
alr 3840739 p.Arg228Trp missense_variant 0.11
alr 3840786 p.Ala212Gly missense_variant 0.11
alr 3841442 c.-22G>A upstream_gene_variant 0.15
clpC1 4040329 c.375delC frameshift_variant 0.22
clpC1 4040856 c.-153delC upstream_gene_variant 0.2
embA 4242409 c.-824G>T upstream_gene_variant 0.12
embA 4244204 p.Met324Ile missense_variant 0.12
embA 4245447 p.Val739Leu missense_variant 0.13
embB 4247061 p.Pro183Gln missense_variant 0.15
aftB 4268357 c.480G>A synonymous_variant 0.33
ubiA 4269907 c.-74T>C upstream_gene_variant 0.22
ethA 4327339 p.Trp45Cys missense_variant 0.22
whiB6 4338312 c.210G>T synonymous_variant 0.14