TB-Profiler result

Run: ERR2229671
Summary

Run ID: ERR2229671

Sample name:

Date: 31-03-2023 17:24:20

Number of reads: 749834

Percentage reads mapped: 99.43

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 6201 p.Arg321Pro missense_variant 0.14
gyrA 7362 p.Glu21Gln missense_variant 1.0
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
rrs 1471659 n.-187C>T upstream_gene_variant 0.95
rrl 1474655 n.998T>A non_coding_transcript_exon_variant 0.29
rrl 1474670 n.1013C>A non_coding_transcript_exon_variant 0.29
rrl 1475080 n.1426delC non_coding_transcript_exon_variant 0.29
fabG1 1674092 p.Ala218Asp missense_variant 0.12
rpsA 1833736 c.195C>T synonymous_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167814 c.2799C>T synonymous_variant 0.33
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169287 c.1326T>C synonymous_variant 0.13
PPE35 2169581 c.1032C>G synonymous_variant 0.13
PPE35 2169587 c.1026G>A synonymous_variant 0.14
PPE35 2170048 p.Leu189Val missense_variant 0.17
PPE35 2170053 p.Thr187Ser missense_variant 0.14
Rv1979c 2221838 p.Gly443Ser missense_variant 0.2
Rv1979c 2221884 c.1281G>T synonymous_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726441 c.249G>A synonymous_variant 0.12
Rv2752c 3065780 p.Val138Met missense_variant 0.11
Rv3236c 3612759 p.Gly120Ser missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245523 c.2294delG frameshift_variant 0.13
embB 4245737 c.-777A>G upstream_gene_variant 0.15
embB 4246544 p.Thr11Pro missense_variant 0.15
embB 4246563 p.Leu17Trp missense_variant 0.13
ethA 4326115 c.1359A>T synonymous_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0