TB-Profiler result

Run: ERR2653015
Summary

Run ID: ERR2653015

Sample name:

Date: 31-03-2023 22:27:01

Number of reads: 1827935

Percentage reads mapped: 99.07

Strain: lineage4.1.1

Drug-resistance: Other

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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
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 0.99
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
rpsL 781821 p.Lys88Gln missense_variant 1.0 streptomycin
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 0.97
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575248 c.-100C>A upstream_gene_variant 0.12
mshA 575881 p.His178Gln missense_variant 0.13
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
fbiC 1304132 p.Ala401Val missense_variant 0.14
fbiC 1305459 c.2534_2535delGC frameshift_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918069 p.Thr44Ser missense_variant 0.13
PPE35 2170041 p.Thr191Met missense_variant 0.13
PPE35 2170048 p.Leu189Val missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726210 c.18T>C synonymous_variant 1.0
folC 2746413 p.Pro396Thr missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3641447 p.Thr302Met missense_variant 1.0
rpoA 3877553 p.Glu319Lys missense_variant 1.0
rpoA 3878601 c.-95delG upstream_gene_variant 0.3
rpoA 3878613 c.-113_-107delCAACCCA upstream_gene_variant 0.25
embC 4240897 c.1035C>G synonymous_variant 1.0
embC 4241677 c.1815G>A synonymous_variant 0.12
embA 4242604 c.-629G>A upstream_gene_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243484 c.252C>G synonymous_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
whiB6 4338498 p.Glu8Asp missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0