TB-Profiler result

Run: ERR2229492
Summary

Run ID: ERR2229492

Sample name:

Date: 31-03-2023 17:15:40

Number of reads: 1024319

Percentage reads mapped: 99.26

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
fgd1 491283 p.Asp167Glu missense_variant 0.25
mshA 576025 c.678G>T synonymous_variant 0.14
mshA 576108 p.Ala254Gly missense_variant 0.32
rpoB 762193 p.Leu796Gln missense_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775715 c.2766G>A synonymous_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673357 c.-83G>A upstream_gene_variant 0.12
fabG1 1673359 c.-81T>C upstream_gene_variant 0.12
fabG1 1673361 c.-79C>G upstream_gene_variant 0.12
fabG1 1673380 c.-60C>G upstream_gene_variant 0.32
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102569 c.474C>A synonymous_variant 0.12
PPE35 2167865 c.2748G>C synonymous_variant 0.14
PPE35 2167868 c.2745A>C synonymous_variant 0.14
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169272 c.1341C>G synonymous_variant 0.11
PPE35 2169902 p.Leu237Phe missense_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.35
PPE35 2170053 p.Thr187Ser missense_variant 0.4
PPE35 2170392 p.Gly74Ala missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518606 c.492G>C synonymous_variant 0.15
kasA 2518609 p.Met165Ile missense_variant 0.15
kasA 2518879 c.765A>G synonymous_variant 0.17
kasA 2518882 c.768C>A synonymous_variant 0.19
kasA 2519128 c.1014G>C synonymous_variant 0.3
kasA 2519131 c.1017G>C synonymous_variant 0.3
kasA 2519140 c.1026G>C synonymous_variant 0.2
kasA 2519143 c.1029G>C synonymous_variant 0.2
kasA 2519153 p.Ile347Val missense_variant 0.18
eis 2714481 c.852G>T synonymous_variant 0.19
eis 2715438 c.-106T>C upstream_gene_variant 0.11
folC 2746566 p.Ala345Ser missense_variant 0.12
pepQ 2859961 p.Ala153Glu missense_variant 0.12
ribD 2987123 c.285C>A synonymous_variant 0.12
ribD 2987463 p.Asp209Asn missense_variant 0.13
Rv2752c 3065361 c.830delG frameshift_variant 0.15
Rv3236c 3612810 p.Pro103Ser missense_variant 0.12
clpC1 4039691 c.1014G>C synonymous_variant 0.12
clpC1 4039831 p.Leu292Met missense_variant 0.16
embC 4240759 c.897C>A synonymous_variant 0.2
embC 4242183 p.Ala774Gly missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245445 p.Asp738Gly missense_variant 0.13
embB 4246548 p.Pro12Gln missense_variant 0.15
embB 4246555 c.42G>C synonymous_variant 0.15
embB 4246556 p.Ala15Pro missense_variant 0.15
aftB 4267798 c.1039C>T synonymous_variant 0.12
aftB 4268048 c.789G>A synonymous_variant 0.13
aftB 4268556 p.Gly94Glu missense_variant 0.17
ethR 4328089 p.Arg181Trp missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0