TB-Profiler result

Run: ERR2229652
Summary

Run ID: ERR2229652

Sample name:

Date: 31-03-2023 17:23:33

Number of reads: 261226

Percentage reads mapped: 99.23

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 8953 p.Gln551Leu missense_variant 0.18
mshA 575711 p.Lys122* stop_gained 0.5
mshA 576565 c.1218G>A synonymous_variant 0.33
rpoB 761082 p.Gly426Cys missense_variant 0.22
rpoB 762972 p.Gln1056Lys missense_variant 0.12
rpoC 764094 p.Arg242His missense_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 779613 c.-708C>A upstream_gene_variant 0.2
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801100 p.Gly98Trp missense_variant 0.4
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472493 n.648T>C non_coding_transcript_exon_variant 0.4
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474324 n.667C>A non_coding_transcript_exon_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918695 c.756G>T synonymous_variant 0.17
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169596 p.Phe339Trp missense_variant 0.25
PPE35 2170048 p.Leu189Val missense_variant 0.44
PPE35 2170053 p.Thr187Ser missense_variant 0.44
PPE35 2170157 p.Ala152Ser missense_variant 0.25
PPE35 2170331 c.282G>A synonymous_variant 0.15
Rv1979c 2223153 c.12G>T synonymous_variant 0.5
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714708 p.Gly209Cys missense_variant 0.67
ahpC 2726376 p.Pro62Thr missense_variant 0.29
ahpC 2726487 p.Gln99Lys missense_variant 0.5
ahpC 2726592 p.Val134Met missense_variant 0.4
pepQ 2859379 p.Gly347Val missense_variant 0.25
ribD 2986944 p.Asp36Tyr missense_variant 0.4
ribD 2987572 p.Thr245Ile missense_variant 0.33
Rv2752c 3065220 c.972C>A synonymous_variant 0.4
alr 3841546 c.-126C>A upstream_gene_variant 0.31
ddn 3986844 c.1A>T initiator_codon_variant 0.17
clpC1 4039944 p.Ser254* stop_gained 0.5
embB 4246548 p.Pro12Gln missense_variant 0.67
embB 4246555 c.42G>C synonymous_variant 0.67
embB 4246556 p.Ala15Pro missense_variant 0.67
embB 4249553 p.Ile1014Phe missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0