TB-Profiler result

Run: ERR4553839
Summary

Run ID: ERR4553839

Sample name:

Date: 01-04-2023 06:22:30

Number of reads: 1599242

Percentage reads mapped: 99.57

Strain:

Drug-resistance: MDR-TB

Download CSV Download TXT Download PDF Download JSON
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
lineage1.1.3 Indo-Oceanic EAI6 RD239 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
rpoB 761254 p.Pro483Leu missense_variant 0.97 rifampicin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
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 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 0.98
fgd1 491448 c.666C>T synonymous_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.35
mshA 576675 p.Arg443His missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 1.0
rpoC 763886 c.517C>A synonymous_variant 1.0
rpoC 765171 p.Pro601Leu missense_variant 0.6
rpoC 765230 p.Ala621Thr missense_variant 0.88
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 778099 p.Asp128Asn missense_variant 1.0
mmpS5 778581 p.Gly109Ser missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834001 p.Glu154Lys missense_variant 0.93
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167709 c.2904C>T synonymous_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167983 p.Gly877Asp missense_variant 1.0
PPE35 2170065 p.Ala183Gly missense_variant 0.17
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288854 p.Val130Met missense_variant 0.97
kasA 2518132 c.18C>T synonymous_variant 0.97
pepQ 2860159 p.Ala87Gly missense_variant 0.21
Rv2752c 3065513 p.Arg227Trp missense_variant 1.0
thyX 3068043 c.-98A>G upstream_gene_variant 1.0
ald 3086767 c.-53A>T upstream_gene_variant 0.97
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.6
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 0.6
embC 4240409 p.Pro183Ala missense_variant 0.21
embC 4240671 p.Thr270Ile missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243848 p.Val206Met missense_variant 0.98
embA 4245314 c.2082G>C synonymous_variant 1.0
embA 4245969 p.Pro913Ser missense_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 0.57
aftB 4269606 c.-770T>C upstream_gene_variant 0.75
ethR 4327846 p.Glu100Lys missense_variant 0.97
whiB6 4338308 c.213dupT frameshift_variant 0.96
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407780 c.423G>A synonymous_variant 0.96
gid 4407873 c.330G>T synonymous_variant 0.67