TB-Profiler result

Run: ERR4819202
Summary

Run ID: ERR4819202

Sample name:

Date: 01-04-2023 15:58:49

Number of reads: 851364

Percentage reads mapped: 99.57

Strain: lineage4.8

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
lineage4.8 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
embB 4247431 p.Met306Ile missense_variant 1.0 ethambutol
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 5255 p.Lys6Glu missense_variant 0.22
gyrB 5511 p.Ser91Phe missense_variant 0.2
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 8730 p.Gly477Arg missense_variant 0.13
gyrA 9619 p.Glu773Gly missense_variant 0.22
rpoB 759689 c.-118A>G upstream_gene_variant 0.12
rpoC 766177 c.2809delA frameshift_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776249 c.2232A>G synonymous_variant 0.12
mmpL5 777371 c.1110C>T synonymous_variant 0.12
mmpL5 778585 c.-105C>G upstream_gene_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781654 c.96delT frameshift_variant 0.13
fbiC 1303296 c.366T>C synonymous_variant 0.11
fbiC 1303378 p.Arg150Ser missense_variant 0.11
fbiC 1305232 p.Ala768Thr missense_variant 0.15
embR 1417379 c.-33_-32insC upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1673952 c.-250G>A upstream_gene_variant 0.11
rpsA 1834628 p.Lys363Glu missense_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154072 c.2040C>T synonymous_variant 0.2
katG 2155059 p.Trp351Cys missense_variant 0.22
Rv1979c 2222522 p.Lys215Glu missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518089 c.-25delA upstream_gene_variant 0.15
ahpC 2726252 c.60C>T synonymous_variant 0.14
ahpC 2726666 c.474C>T synonymous_variant 0.13
ribD 2987110 p.Glu91Val missense_variant 0.11
Rv2752c 3066321 c.-130C>G upstream_gene_variant 1.0
thyA 3074103 c.369C>A synonymous_variant 0.12
whiB7 3568475 p.Glu69Lys missense_variant 0.12
Rv3236c 3613041 c.76C>A synonymous_variant 0.13
clpC1 4038326 p.Glu793Asp missense_variant 0.15
clpC1 4040399 c.305delA frameshift_variant 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267149 p.Glu563Gly missense_variant 1.0
aftB 4267155 p.Gln561Arg missense_variant 1.0
ubiA 4269517 p.Ala106Val missense_variant 0.25
ethA 4326996 p.Pro160Ala missense_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338666 c.-145G>A upstream_gene_variant 0.12
gid 4407635 p.Thr190Ala missense_variant 0.12
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0