TB-Profiler result

Run: SRR1103616
Summary

Run ID: SRR1103616

Sample name:

Date: 02-04-2023 20:43:51

Number of reads: 1551168

Percentage reads mapped: 68.59

Strain: lineage4.1.3

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 0.99
lineage4.1.3 Euro-American T;X;H 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
ccsA 619990 p.Phe34Val missense_variant 0.29
ccsA 620487 c.597C>G synonymous_variant 1.0
rpoB 762415 p.Lys870Thr missense_variant 0.14
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
rpsL 781421 c.-139C>A upstream_gene_variant 1.0
fbiC 1304610 c.1680C>T synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155862 p.Met84Val missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288693 c.549T>G synonymous_variant 0.21
pepQ 2859824 p.Asn199His missense_variant 0.14
pepQ 2860588 c.-170A>G upstream_gene_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
ddn 3987024 p.Val61Phe missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243054 c.-179G>C upstream_gene_variant 0.11
embA 4243612 p.Ala127Asp missense_variant 0.25
embB 4248669 p.Val719Ala missense_variant 0.14
embB 4248684 p.Ala724Val missense_variant 0.14
embB 4248687 p.Gly725Val missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0