TB-Profiler result

Run: ERR4813502
Summary

Run ID: ERR4813502

Sample name:

Date: 01-04-2023 12:47:48

Number of reads: 2767675

Percentage reads mapped: 99.27

Strain:

Drug-resistance: HR-TB

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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
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491288 p.Gly169Asp missense_variant 0.22
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.3
ccsA 620196 c.306C>T synonymous_variant 0.29
ccsA 620220 p.Met110Ile missense_variant 0.2
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766957 c.3588G>A synonymous_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406145 p.Ala399Val missense_variant 0.18
embR 1416858 p.Thr164Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472552 n.707A>G non_coding_transcript_exon_variant 0.1
PPE35 2170020 p.Phe198Ser missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
folC 2746565 p.Ala345Val missense_variant 0.33
pepQ 2859819 c.600G>T synonymous_variant 0.11
thyX 3068035 c.-90G>A upstream_gene_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339263 p.Ala49Val missense_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.98
alr 3841001 p.Glu140Asp missense_variant 1.0
clpC1 4040192 c.513C>T synonymous_variant 0.11
clpC1 4040254 p.Ala151Thr missense_variant 0.13
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4248522 p.Thr670Lys missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407967 p.Leu79Trp missense_variant 1.0