TB-Profiler result

Run: ERR2228836

Summary

Run ID: ERR2228836

Sample name:

Date: 31-03-2023 16:22:34

Number of reads: 1232539

Percentage reads mapped: 99.37

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
gyrB 6834 p.Asp532Ala missense_variant 0.25
gyrB 6855 p.His539Leu missense_variant 0.2
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.38
rpoC 764313 p.Asp315Ala missense_variant 0.35
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304981 p.Lys684Met missense_variant 0.23
fbiC 1305035 p.Leu702Arg missense_variant 0.17
atpE 1461045 c.1A>T initiator_codon_variant 0.2
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154866 p.Ile416Phe missense_variant 0.3
katG 2155549 p.Val188Gly missense_variant 0.25
PPE35 2167909 p.Gly902* stop_gained 0.22
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169029 p.Asp528Glu missense_variant 0.5
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746911 p.Thr230Ala missense_variant 0.2
Rv2752c 3064566 c.1626G>C synonymous_variant 0.5
Rv3236c 3612864 p.Ser85Cys missense_variant 0.27
Rv3236c 3613146 c.-30T>G upstream_gene_variant 0.2
fbiB 3642213 p.Ser227Ala missense_variant 0.24
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243441 p.Leu70Arg missense_variant 0.39
embA 4245826 p.Asp865Ala missense_variant 0.22
embB 4246579 c.66T>G synonymous_variant 0.29
embB 4246582 c.69T>G synonymous_variant 0.22
embB 4246595 p.Trp28Gly missense_variant 0.27
embB 4248395 p.Phe628Val missense_variant 0.21
ethR 4328092 p.Thr182Pro missense_variant 0.36
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0