TB-Profiler result

Run: ERR4814071

Summary

Run ID: ERR4814071

Sample name:

Date: 01-04-2023 13:10:13

Number of reads: 2598241

Percentage reads mapped: 99.49

Strain: lineage4.4.1;lineage4.3.4.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 0.8
lineage4.4 Euro-American S;T None 0.19
lineage4.4.1 Euro-American (S-type) S;T None 0.18
lineage4.3.4 Euro-American (LAM) LAM RD174 0.79
lineage4.3.4.1 Euro-American (LAM) LAM1;LAM2 RD174 0.83
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
gyrB 5075 c.-164delG upstream_gene_variant 0.23
gyrB 6028 c.789C>T synonymous_variant 0.85
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8639 c.1338G>A synonymous_variant 0.79
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 759608 c.-199C>T upstream_gene_variant 0.81
rpoC 764995 c.1626C>G synonymous_variant 0.68
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801066 c.258G>A synonymous_variant 0.81
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 0.16
PPE35 2169840 p.Gly258Asp missense_variant 0.19
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv1979c 2223297 c.-133G>C upstream_gene_variant 0.24
eis 2715051 c.282C>A synonymous_variant 0.18
ahpC 2726323 p.Pro44Arg missense_variant 0.82
pepQ 2860286 p.Val45Leu missense_variant 0.35
thyA 3073868 p.Thr202Ala missense_variant 0.85
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448598 p.Ile32Thr missense_variant 0.77
Rv3083 3448608 c.105G>A synonymous_variant 0.25
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 0.84
fbiB 3642416 c.882G>T synonymous_variant 0.11
rpoA 3878270 p.Leu80Val missense_variant 0.79
clpC1 4038287 c.2418C>T synonymous_variant 0.88
panD 4043996 p.Ala96Thr missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4268982 c.-146G>A upstream_gene_variant 0.79
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.73