TB-Profiler result

Run: ERR4407466
Summary

Run ID: ERR4407466

Sample name:

Date: 01-04-2023 05:45:16

Number of reads: 209379

Percentage reads mapped: 99.44

Strain: lineage4.6.4

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
lineage4.6.4 Euro-American T;LAM 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
katG 2155340 c.771delG frameshift_variant 0.25 isoniazid
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 7949 c.648G>A synonymous_variant 0.12
gyrA 9071 c.1770G>A synonymous_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9448 p.Val716Ala missense_variant 0.22
ccsA 620301 c.411G>T synonymous_variant 0.17
rpoB 759701 c.-106A>G upstream_gene_variant 0.25
rpoB 759836 c.30C>T synonymous_variant 1.0
rpoB 761152 p.Leu449Gln missense_variant 0.33
rpoB 762152 c.2346C>A synonymous_variant 0.17
rpoC 763601 p.Cys78Gly missense_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801066 c.259_260delGA frameshift_variant 0.17
fbiC 1303873 p.Leu315Met missense_variant 0.18
fbiC 1304924 c.1997delG frameshift_variant 0.18
Rv1258c 1406616 p.Met242Lys missense_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471972 n.127T>C non_coding_transcript_exon_variant 0.12
rrl 1474750 n.1093C>T non_coding_transcript_exon_variant 1.0
fabG1 1673627 p.Thr63Ile missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168205 p.Pro803Gln missense_variant 0.14
PPE35 2169887 c.726C>T synonymous_variant 0.29
Rv1979c 2222967 c.198G>A synonymous_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714310 c.1023C>A synonymous_variant 0.15
ribD 2987531 c.693C>T synonymous_variant 0.12
Rv3083 3448603 p.Leu34Phe missense_variant 0.29
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474520 p.Val172Met missense_variant 0.17
fbiB 3642372 p.Val280Phe missense_variant 0.17
embC 4239776 c.-87G>A upstream_gene_variant 0.25
embC 4240315 c.453C>A synonymous_variant 0.11
embC 4242579 p.Ala906Val missense_variant 0.15
embC 4242594 p.His911Arg missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4243142 p.Gly1094Arg missense_variant 0.18
embA 4245212 c.1980G>A synonymous_variant 0.29
embB 4248093 p.Tyr527Phe missense_variant 0.11
embB 4248496 c.1983G>A synonymous_variant 1.0
embB 4249039 c.2526A>G synonymous_variant 0.14
aftB 4267696 p.Gly381Arg missense_variant 0.25
ethR 4326583 c.-966G>T upstream_gene_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0