TB-Profiler result

Run: ERR4812734
Summary

Run ID: ERR4812734

Sample name:

Date: 01-04-2023 12:17:37

Number of reads: 239733

Percentage reads mapped: 98.7

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
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 761155 p.Ser450Leu missense_variant 1.0 rifampicin
rpsL 781687 p.Lys43Arg missense_variant 1.0 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
embB 4247431 p.Met306Ile missense_variant 1.0 ethambutol
ethA 4327380 p.Tyr32Asp missense_variant 1.0 ethionamide
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 7597 p.Met99Lys missense_variant 0.2
gyrA 8101 p.Thr267Ile missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764820 p.Trp484Ser missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpL5 777350 c.1131G>T synonymous_variant 0.2
mmpL5 779364 c.-884C>A upstream_gene_variant 0.15
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475029 n.1377delG non_coding_transcript_exon_variant 0.4
inhA 1673541 c.-661G>T upstream_gene_variant 0.5
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101891 c.1152C>A synonymous_variant 0.2
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726651 c.459G>T synonymous_variant 0.17
Rv2752c 3065903 c.288_289insT frameshift_variant 1.0
thyA 3073897 c.574delG frameshift_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448657 p.Gly52* stop_gained 0.5
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3641331 c.793dupG frameshift_variant 0.17
rpoA 3877566 c.942C>T synonymous_variant 0.12
clpC1 4040611 p.His32Asn missense_variant 0.4
clpC1 4040627 p.Asn26Lys missense_variant 0.4
embC 4242558 p.Gln899Arg missense_variant 0.67
embA 4243460 c.228C>T synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407858 c.345G>T synonymous_variant 0.67
gid 4407927 p.Glu92Asp missense_variant 1.0