TB-Profiler result

Run: SRR6896153
Summary

Run ID: SRR6896153

Sample name:

Date: 04-04-2023 17:57:12

Number of reads: 761609

Percentage reads mapped: 99.46

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 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766998 p.Ile1210Thr missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775731 p.Asp917Gly missense_variant 1.0
mmpL5 777527 c.954G>T synonymous_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801021 c.213C>T synonymous_variant 1.0
fbiC 1304979 c.2049C>A synonymous_variant 0.2
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917883 c.-57A>G upstream_gene_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168261 p.Phe784Leu 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 2746831 c.768G>T synonymous_variant 0.14
thyX 3068111 c.-166C>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878437 p.Glu24Val missense_variant 0.13
embC 4242359 p.Asn833Asp missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4249282 c.2769A>G synonymous_variant 0.11
embB 4249468 c.2955G>C synonymous_variant 1.0
embB 4249521 p.Ala1003Asp missense_variant 0.12
embB 4249765 c.3252C>A synonymous_variant 0.13
aftB 4268430 p.Thr136Ile missense_variant 0.15
aftB 4268678 p.Glu53Asp missense_variant 1.0
aftB 4268868 c.-32G>T upstream_gene_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338624 c.-103C>G upstream_gene_variant 1.0