TB-Profiler result

Run: ERR10969120
Summary

Run ID: ERR10969120

Sample name:

Date: 31-03-2023 11:22:35

Number of reads: 1878772

Percentage reads mapped: 99.61

Strain: lineage4.3.4.1;lineage4.1.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 0.51
lineage4.1 Euro-American T;X;H None 0.47
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 0.49
lineage4.3.4 Euro-American (LAM) LAM RD174 0.56
lineage4.3.4.1 Euro-American (LAM) LAM1;LAM2 RD174 0.53
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 576456 p.Val370Gly missense_variant 0.4
rpoC 764995 c.1626C>G synonymous_variant 0.53
rpoC 765150 p.Gly594Glu missense_variant 0.42
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 1673368 c.-834A>G upstream_gene_variant 0.49
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170065 p.Ala183Gly missense_variant 0.26
Rv1979c 2222854 p.Ile104Thr missense_variant 0.57
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726210 c.18T>C synonymous_variant 0.52
pepQ 2860159 p.Ala87Gly missense_variant 0.3
thyA 3073868 p.Thr202Ala missense_variant 0.48
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087816 p.Cys333Gly missense_variant 0.12
fbiD 3339734 p.Ala206Gly missense_variant 0.62
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 0.61
fbiA 3641447 p.Thr302Met missense_variant 0.31
rpoA 3877553 p.Glu319Lys missense_variant 0.33
clpC1 4038287 c.2418C>T synonymous_variant 0.49
clpC1 4039991 c.714G>A synonymous_variant 0.38
embC 4240409 p.Pro183Ala missense_variant 0.24
embC 4240897 c.1035C>G synonymous_variant 0.38
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.42
embB 4246527 p.Ala5Gly missense_variant 0.25
embB 4249408 c.2895G>A synonymous_variant 0.63
aftB 4268619 p.Val73Gly missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.6