TB-Profiler result

Run: SRR10272574
Summary

Run ID: SRR10272574

Sample name:

Date: 02-04-2023 16:41:44

Number of reads: 960028

Percentage reads mapped: 88.41

Strain: lineage4.4.1.1

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
lineage4.4 Euro-American S;T None 0.98
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans 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
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 490991 c.212delG frameshift_variant 0.12
mshA 575504 p.His53Asn missense_variant 0.12
rpoB 762053 c.2247T>C synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674449 p.Gly83Val missense_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102074 p.Met323Lys missense_variant 0.12
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2169278 c.1335T>C synonymous_variant 0.12
PPE35 2169281 c.1332T>G synonymous_variant 0.12
PPE35 2169840 p.Gly258Asp missense_variant 0.95
PPE35 2170048 p.Leu189Val missense_variant 0.58
PPE35 2170053 p.Thr187Ser missense_variant 0.57
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290194 c.-953G>A upstream_gene_variant 0.12
folC 2746646 p.Gln318Leu missense_variant 0.17
folC 2746908 p.Val231Phe missense_variant 0.13
folC 2747116 c.483G>T synonymous_variant 0.13
pepQ 2859793 p.Asp209Gly missense_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
Rv3083 3449049 c.546C>G synonymous_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612155 p.Arg321Leu missense_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
rpoA 3878486 c.21delC frameshift_variant 0.2
clpC1 4039484 c.1221T>G synonymous_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 0.14
embB 4246555 c.42G>C synonymous_variant 0.14
embB 4246556 p.Ala15Pro missense_variant 0.14
embB 4246852 c.339G>T synonymous_variant 0.17
embB 4249035 p.Arg841Gln missense_variant 0.2
aftB 4267855 c.982C>A synonymous_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0