TB-Profiler result

Run: ERR2229813
Summary

Run ID: ERR2229813

Sample name:

Date: 31-03-2023 17:36:33

Number of reads: 617907

Percentage reads mapped: 99.66

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 0.99
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
fgd1 491475 c.693C>A synonymous_variant 0.22
mshA 576108 p.Ala254Gly missense_variant 0.18
rpoC 766025 p.Val886Met missense_variant 0.25
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
Rv1258c 1406234 c.1107A>G synonymous_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471856 n.11A>G non_coding_transcript_exon_variant 0.15
rrl 1473423 n.-235C>A upstream_gene_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1476012 n.2355T>C non_coding_transcript_exon_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167833 p.Leu927Arg missense_variant 0.12
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169278 c.1335T>C synonymous_variant 0.14
PPE35 2169281 c.1332T>G synonymous_variant 0.15
PPE35 2169287 c.1326T>C synonymous_variant 0.17
PPE35 2169293 c.1320T>C synonymous_variant 0.13
PPE35 2169308 c.1305C>T synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519346 p.Leu411Pro missense_variant 0.12
thyX 3067795 p.Asn51Asp missense_variant 0.17
ald 3086622 c.-198C>T upstream_gene_variant 0.15
ald 3086624 c.-196T>C upstream_gene_variant 0.15
clpC1 4039018 p.Ser563Ala missense_variant 0.17
clpC1 4039022 c.1683A>G synonymous_variant 0.18
clpC1 4039526 c.1179G>C synonymous_variant 0.15
clpC1 4039530 p.Asp392Ala missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249392 p.Trp960Leu missense_variant 0.13
aftB 4267190 c.1647T>A synonymous_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