TB-Profiler result

Run: ERR4553771
Summary

Run ID: ERR4553771

Sample name:

Date: 01-04-2023 06:20:06

Number of reads: 2140723

Percentage reads mapped: 99.56

Strain:

Drug-resistance: MDR-TB

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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
lineage1.2.2 Indo-Oceanic EAI1 RD239 0.98
lineage1.2.2.2 Indo-Oceanic NA RD239 0.98
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 761161 p.Leu452Pro missense_variant 0.94 rifampicin
fabG1 1673425 c.-15C>T upstream_gene_variant 0.67 isoniazid, ethionamide
inhA 1674262 p.Ile21Val missense_variant 1.0 isoniazid
embB 4248003 p.Gln497Arg missense_variant 0.94 ethambutol
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.-165C>T upstream_gene_variant 0.99
gyrB 6112 p.Met291Ile missense_variant 0.67
gyrA 7268 c.-34C>T upstream_gene_variant 0.95
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8452 p.Ala384Val missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 0.75
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.36
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776555 c.1926C>T synonymous_variant 1.0
mmpR5 779392 p.Arg135Trp missense_variant 0.97
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407467 c.-127C>A upstream_gene_variant 0.99
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102913 p.Ala44Thr missense_variant 0.92
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168742 p.Gly624Asp missense_variant 0.96
PPE35 2169071 c.1542A>C synonymous_variant 0.88
PPE35 2169199 p.Val472Leu missense_variant 0.94
Rv1979c 2222308 p.Asp286Gly missense_variant 0.96
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086890 p.Ala24Gly missense_variant 0.93
fbiD 3339734 p.Ala206Gly missense_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
fprA 3475370 p.Leu455Arg missense_variant 0.97
clpC1 4040517 p.Val63Ala missense_variant 0.45
embC 4240671 p.Thr270Ile missense_variant 0.97
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248319 c.1806A>T synonymous_variant 0.21
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 0.78
ethA 4326148 c.1326G>T synonymous_variant 0.96
ethA 4326439 p.Asn345Lys missense_variant 0.98
whiB6 4338203 p.Arg107Cys missense_variant 0.94
whiB6 4338596 c.-75G>A upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407727 p.Met159Arg missense_variant 0.94
gid 4407873 c.330G>T synonymous_variant 0.33