TB-Profiler result

Run: ERR9872280
Summary

Run ID: ERR9872280

Sample name:

Date: 02-04-2023 13:17:39

Number of reads: 1259612

Percentage reads mapped: 99.94

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 None 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
mshA 576095 p.Gly250Cys missense_variant 0.11
ccsA 620617 p.Gly243Trp missense_variant 0.22
rpoB 762464 p.Lys886Asn missense_variant 0.16
mmpL5 777903 p.Val193Ala missense_variant 0.15
mmpL5 778050 p.Gly144Asp missense_variant 0.2
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473949 n.292C>T non_coding_transcript_exon_variant 0.13
rrl 1474973 n.1319dupG non_coding_transcript_exon_variant 0.12
fabG1 1673473 p.Pro12Thr missense_variant 0.11
inhA 1674360 c.159G>T synonymous_variant 0.29
rpsA 1833390 c.-152T>A upstream_gene_variant 0.13
katG 2154472 p.Gly547Asp missense_variant 0.17
katG 2154923 p.Trp397Arg missense_variant 0.85
Rv3083 3448346 c.-158C>A upstream_gene_variant 0.13
fprA 3475061 p.Pro352His missense_variant 0.14
fprA 3475084 p.Ile360Val missense_variant 0.12
fbiA 3641335 p.Val265Leu missense_variant 0.11
clpC1 4039426 p.Lys427* stop_gained 0.14
clpC1 4040307 p.Arg133Leu missense_variant 0.11
embC 4240008 p.Leu49Arg missense_variant 0.11
embC 4241651 p.Ala597Thr missense_variant 0.18
embC 4241711 p.Arg617Trp missense_variant 0.12
embA 4244166 c.937delC frameshift_variant 0.12
embA 4244283 p.Pro351Thr missense_variant 0.2
embA 4244483 c.1251T>C synonymous_variant 0.14
embB 4245611 c.-903C>T upstream_gene_variant 0.2
embA 4245614 p.Asn794Lys missense_variant 0.2
embA 4245715 p.Leu828Pro missense_variant 0.29
embB 4247266 c.753C>A synonymous_variant 0.11
embB 4248746 p.Gly745Cys missense_variant 0.12
aftB 4267558 p.Ala427Thr missense_variant 0.13
aftB 4268677 c.160C>A synonymous_variant 0.17
ethA 4326060 p.Lys472Glu missense_variant 0.12
ethR 4327562 p.Ala5Gly missense_variant 0.1