TB-Profiler result

Run: ERR4820241
Summary

Run ID: ERR4820241

Sample name:

Date: 01-04-2023 16:34:07

Number of reads: 1115226

Percentage reads mapped: 99.74

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
gyrA 8771 c.1470C>T synonymous_variant 0.11
fgd1 491202 c.420G>C synonymous_variant 0.11
fgd1 491204 p.Gln141Arg missense_variant 0.11
mshA 575405 p.Arg20Cys missense_variant 0.11
mshA 576710 c.1367delG frameshift_variant 0.1
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776318 p.Ser721Arg missense_variant 0.1
mmpL5 778932 c.-452A>G upstream_gene_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406479 p.Arg288Cys missense_variant 0.18
Rv1258c 1406594 c.747A>G synonymous_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471977 n.132C>A non_coding_transcript_exon_variant 0.2
inhA 1674508 p.Met103Leu missense_variant 0.1
inhA 1674703 c.502T>C synonymous_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918362 c.423G>A synonymous_variant 0.11
tlyA 1918643 p.Gly235Asp missense_variant 0.12
ndh 2102881 c.162G>T synonymous_variant 0.1
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860499 c.-81C>T upstream_gene_variant 0.14
Rv2752c 3066104 p.Asn30Asp missense_variant 0.1
thyX 3067592 c.354G>A synonymous_variant 0.11
Rv3083 3448365 c.-139T>C upstream_gene_variant 0.12
fprA 3474858 c.852G>T synonymous_variant 0.12
embC 4242350 p.Pro830Ser missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243262 c.30C>T synonymous_variant 0.12
embB 4247072 p.Gly187Arg missense_variant 0.11
embB 4247155 c.642G>T synonymous_variant 0.11
embB 4249354 c.2841G>C synonymous_variant 1.0
embB 4249574 p.Lys1021* stop_gained 0.13
aftB 4267735 p.Gly368Cys missense_variant 0.12
aftB 4268910 c.-74T>A upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338598 c.-77G>C upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0