TB-Profiler result

Run: ERR2229202
Summary

Run ID: ERR2229202

Sample name:

Date: 31-03-2023 16:48:38

Number of reads: 1308986

Percentage reads mapped: 99.21

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
mshA 576108 p.Ala254Gly missense_variant 0.22
mshA 576500 p.Ile385Phe missense_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776099 c.2382C>G synonymous_variant 0.11
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 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 0.96
PPE35 2167868 c.2745A>C synonymous_variant 0.11
PPE35 2167965 p.Ala883Gly missense_variant 0.19
PPE35 2167967 c.2646A>C synonymous_variant 0.18
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169902 p.Leu237Phe missense_variant 0.2
PPE35 2169910 p.Asn235Tyr missense_variant 0.18
PPE35 2170048 p.Leu189Val missense_variant 0.25
PPE35 2170053 p.Thr187Ser missense_variant 0.25
PPE35 2170147 p.Ser156Ala missense_variant 0.16
PPE35 2170157 p.Ala152Ser missense_variant 0.16
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv3236c 3612371 p.Leu249Pro missense_variant 0.15
alr 3841546 c.-126C>A upstream_gene_variant 0.18
panD 4044442 c.-161C>A upstream_gene_variant 0.15
embC 4242236 p.Ala792Thr missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244788 p.Phe519Ser missense_variant 0.11
embB 4246544 p.Thr11Pro missense_variant 0.12
embB 4246548 p.Pro12Gln missense_variant 0.27
embB 4246555 c.42G>C synonymous_variant 0.38
embB 4246556 p.Ala15Pro missense_variant 0.38
embB 4246988 p.Ala159Ser missense_variant 0.13
embB 4247028 p.Leu172Arg missense_variant 0.3
embB 4249737 p.Pro1075His missense_variant 0.17
aftB 4267954 p.Ala295Pro missense_variant 0.12
aftB 4268680 p.Glu53Gln missense_variant 0.1
ethR 4327900 p.Lys118* stop_gained 0.12
ethR 4328050 c.505delC frameshift_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0