TB-Profiler result

Run: ERR2512842
Summary

Run ID: ERR2512842

Sample name:

Date: 31-03-2023 19:17:28

Number of reads: 394302

Percentage reads mapped: 99.62

Strain: lineage4.3.2.1

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 1.0
lineage4.3.2 Euro-American (LAM) LAM3 None 0.98
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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
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 5520 p.Pro94Leu missense_variant 1.0
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
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 576603 p.Arg419Leu missense_variant 0.22
ccsA 620132 p.Leu81Pro missense_variant 0.29
rpoC 764726 p.Lys453* stop_gained 0.13
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778353 p.Ile43Asn missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406490 p.Arg284His missense_variant 0.18
Rv1258c 1406870 c.471C>T synonymous_variant 0.1
Rv1258c 1406955 p.Pro129Arg missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917817 c.-122delC upstream_gene_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102861 p.Gly61Val missense_variant 0.14
PPE35 2167717 c.2896T>C synonymous_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518323 p.Ser70Asn missense_variant 0.13
eis 2714566 p.Leu256Pro missense_variant 0.22
ahpC 2726341 p.Val50Gly missense_variant 0.3
ahpC 2726345 c.153C>T synonymous_variant 0.33
pepQ 2859558 c.861C>T synonymous_variant 0.17
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086750 c.-70A>G upstream_gene_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449194 p.Gly231Arg missense_variant 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640691 p.Asp50Val missense_variant 0.17
fbiB 3642490 p.Ser319Phe missense_variant 0.13
rpoA 3878358 c.150C>T synonymous_variant 0.29
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4040804 c.-100C>T upstream_gene_variant 0.17
embC 4241979 p.Ser706Tyr missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245240 p.Tyr670His missense_variant 0.18
embB 4247137 c.624C>A synonymous_variant 0.18
ubiA 4269011 p.Glu275Gln missense_variant 0.12
whiB6 4338235 p.Arg96Gln missense_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0