TB-Profiler result

Run: ERR11050979
Summary

Run ID: ERR11050979

Sample name:

Date: 04-04-2023 05:25:22

Number of reads: 2437677

Percentage reads mapped: 99.53

Strain: lineage4.4

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.4 Euro-American S;T None 1.0
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 761139 p.His445Asn missense_variant 1.0 rifampicin
rrs 1472362 n.517C>T non_coding_transcript_exon_variant 1.0 streptomycin
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 9304 p.Gly668Asp missense_variant 1.0
mshA 576113 p.Arg256Gly missense_variant 0.17
mshA 576456 p.Val370Gly missense_variant 0.24
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779246 p.Ala86Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170065 p.Ala183Gly missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.25
Rv2752c 3065715 c.477T>C synonymous_variant 1.0
thyA 3074495 c.-24C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.5
fbiD 3339746 p.Ala210Gly missense_variant 0.27
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878613 c.-106A>C upstream_gene_variant 0.23
rpoA 3878641 c.-134C>G upstream_gene_variant 0.23
embC 4240409 p.Pro183Ala missense_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243496 c.264G>A synonymous_variant 1.0
embB 4246529 p.Ser6Arg missense_variant 0.23
embB 4246584 p.Arg24Pro missense_variant 0.15
aftB 4268928 c.-92C>T upstream_gene_variant 0.99
aftB 4269375 c.-539G>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408103 p.Gly34Trp missense_variant 1.0