TB-Profiler result

Run: ERR4812622
Summary

Run ID: ERR4812622

Sample name:

Date: 01-04-2023 12:12:09

Number of reads: 889956

Percentage reads mapped: 99.56

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 1.0
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
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.46
mshA 576111 p.Ala255Gly missense_variant 0.23
mshA 576140 p.Glu265* stop_gained 0.12
ccsA 620015 p.Arg42Leu missense_variant 0.2
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775631 c.2850G>A synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303146 c.216G>A synonymous_variant 0.18
fbiC 1304032 p.Glu368Lys missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 0.97
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154271 p.Ala614Glu missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
pepQ 2860243 p.Arg59Gln missense_variant 0.12
Rv2752c 3065031 c.1161G>T synonymous_variant 0.11
Rv2752c 3065118 c.1074C>T synonymous_variant 0.89
thyX 3067420 p.Pro176Thr missense_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087808 p.Arg330Leu missense_variant 0.11
fbiD 3339519 p.His134Gln missense_variant 0.12
fbiD 3339617 p.Ser167Tyr missense_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568818 c.-139C>A upstream_gene_variant 0.11
alr 3840294 p.Ala376Val missense_variant 0.78
rpoA 3878592 c.-85C>A upstream_gene_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embC 4242978 p.Leu1039Pro missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0