TB-Profiler result

Run: ERR11050079
Summary

Run ID: ERR11050079

Sample name:

Date: 02-04-2023 10:43:35

Number of reads: 3326626

Percentage reads mapped: 99.51

Strain: lineage4.1.2

Drug-resistance: Other

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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 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
ethR 4327876 p.Phe110Leu missense_variant 1.0 ethionamide
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 0.99
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9647 c.2346C>G synonymous_variant 0.28
fgd1 491591 p.Lys270Met missense_variant 0.99
mshA 576113 p.Arg256Gly missense_variant 0.37
mshA 576442 p.Cys365Trp missense_variant 0.14
mshA 576453 p.Val369Gly missense_variant 0.29
mshA 576468 p.Val374Gly missense_variant 0.27
mshA 576489 p.Val381Gly missense_variant 0.23
mshA 576606 p.Ala420Gly missense_variant 0.32
mshA 576616 c.1269G>C synonymous_variant 0.27
mshA 576618 p.His424Pro missense_variant 0.14
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 764367 p.Gly333Ala missense_variant 0.26
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.31
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800889 c.81C>A synonymous_variant 1.0
fbiC 1303157 p.His76Pro missense_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476058 n.2401T>G non_coding_transcript_exon_variant 0.18
fabG1 1673553 p.Asp38Glu missense_variant 0.47
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168303 c.2310G>T synonymous_variant 1.0
PPE35 2169776 p.Phe279Leu missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.36
pepQ 2859933 c.486C>G synonymous_variant 0.19
pepQ 2860159 p.Ala87Gly missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087816 p.Cys333Gly missense_variant 0.21
fbiD 3339751 p.Ala212Pro missense_variant 0.75
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568431 c.249C>G synonymous_variant 0.18
alr 3840263 c.1158C>T synonymous_variant 1.0
rpoA 3878580 c.-73A>C upstream_gene_variant 0.67
rpoA 3878641 c.-134C>G upstream_gene_variant 0.82
embC 4240409 p.Pro183Ala missense_variant 0.19
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.61
embB 4247016 p.Ser168Trp missense_variant 0.19
embB 4248328 c.1815G>C synonymous_variant 0.23
aftB 4267400 c.1437G>C synonymous_variant 0.21
ethR 4326859 c.-690C>T upstream_gene_variant 1.0
whiB6 4338200 p.Asp108His missense_variant 0.3
whiB6 4338595 c.-75delG upstream_gene_variant 1.0