TB-Profiler result

Run: ERR2513773
Summary

Run ID: ERR2513773

Sample name:

Date: 31-03-2023 19:53:48

Number of reads: 419756

Percentage reads mapped: 99.59

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 0.99
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9569 c.2268C>T synonymous_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575423 p.Arg26Cys missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576702 c.1355_1356insT frameshift_variant 0.29
mshA 576751 p.Lys468Asn missense_variant 0.33
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 763863 p.Gln165Pro missense_variant 0.2
rpoC 763892 c.527delA frameshift_variant 0.25
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303822 p.Lys298Glu missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473302 n.1457G>A non_coding_transcript_exon_variant 0.14
inhA 1674776 p.Gly192Asp missense_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154019 p.Phe698Ser missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
thyA 3074371 p.Met34Thr missense_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474302 p.Ala99Gly missense_variant 0.17
fprA 3474305 c.299_300insA frameshift_variant 0.18
fbiB 3642079 p.Pro182Leu missense_variant 0.14
rpoA 3878072 p.Tyr146His missense_variant 0.11
clpC1 4038974 c.1731T>C synonymous_variant 0.15
clpC1 4040447 p.Lys86Asn missense_variant 0.11
panD 4044317 c.-36A>T upstream_gene_variant 0.14
embC 4240464 p.Phe201Tyr missense_variant 0.14
embC 4241012 p.Met384Val missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4247094 p.Gly194Glu missense_variant 0.17
embB 4247280 p.Phe256Ser missense_variant 0.17
embB 4248526 c.2013C>A synonymous_variant 0.11
ethA 4326960 p.Asp172Asn missense_variant 0.18
ethA 4327584 c.-111A>T upstream_gene_variant 0.15
ethA 4327737 c.-264G>A upstream_gene_variant 0.11
ethR 4328102 c.555_560delGTCATT disruptive_inframe_deletion 0.15
ethR 4328111 p.Ala188Gly missense_variant 0.16
ethR 4328113 c.565_566insAATGAC stop_gained&disruptive_inframe_insertion 0.16
whiB6 4338595 c.-75delG upstream_gene_variant 1.0