TB-Profiler result

Run: SRR10272575
Summary

Run ID: SRR10272575

Sample name:

Date: 02-04-2023 16:38:19

Number of reads: 1014096

Percentage reads mapped: 97.56

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 1.0
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
mshA 576060 c.716_720dupATCCC frameshift_variant 0.13
mshA 576751 p.Lys468Asn missense_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303968 c.1038G>A synonymous_variant 0.12
fbiC 1304528 p.Asp533Gly missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918132 p.Arg65Ser missense_variant 0.17
tlyA 1918231 p.Glu98* stop_gained 0.12
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 0.98
PPE35 2170048 p.Leu189Val missense_variant 0.2
PPE35 2170053 p.Thr187Ser missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518864 c.750G>C synonymous_variant 0.12
kasA 2518879 c.765A>G synonymous_variant 0.11
kasA 2519041 c.927C>T synonymous_variant 0.17
ribD 2987447 c.609C>T synonymous_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
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
alr 3841153 p.Gly90Cys missense_variant 0.17
rpoA 3878578 c.-71C>A upstream_gene_variant 0.4
clpC1 4039714 p.Tyr331His missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4245719 c.-795G>A upstream_gene_variant 0.15
embB 4247577 p.Leu355Pro missense_variant 0.12
ubiA 4269476 p.Leu120Met missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0