TB-Profiler result

Run: SRR2101582
Summary

Run ID: SRR2101582

Sample name:

Date: 03-04-2023 23:48:05

Number of reads: 288429

Percentage reads mapped: 99.52

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
rpoB 759620 c.-187A>C upstream_gene_variant 0.2
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761382 p.Thr526Ser missense_variant 1.0
rpoC 763425 p.Asp19Gly missense_variant 0.11
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 1304736 p.Gln602His missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475094 n.1437C>T non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102935 c.108C>T synonymous_variant 0.12
PPE35 2170066 p.Ala183Thr missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
folC 2746511 p.Ala363Val missense_variant 0.13
Rv2752c 3065672 p.Asp174Asn missense_variant 0.18
Rv2752c 3065995 p.His66Arg missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086987 p.Gln56His missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474064 p.Ala20Thr missense_variant 0.12
fbiB 3642806 c.1272C>T synonymous_variant 0.29
alr 3841393 p.Lys10Glu missense_variant 0.12
ddn 3986975 c.132T>A synonymous_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407791 p.Ala138Thr missense_variant 1.0