TB-Profiler result

Run: ERR10748172
Summary

Run ID: ERR10748172

Sample name:

Date: 31-03-2023 10:46:23

Number of reads: 390186

Percentage reads mapped: 98.68

Strain: lineage4.1.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.1 Euro-American (X-type) X1;X2;X3 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 761110 p.Asp435Gly missense_variant 1.0 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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491510 p.Leu243Ser missense_variant 0.18
rpoB 760024 p.Asp73Gly missense_variant 0.1
rpoB 761277 p.Ile491Leu missense_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766706 p.Glu1113Gln missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800690 c.-119C>T upstream_gene_variant 0.2
fbiC 1303891 p.Ala321Thr missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154331 p.Phe594Tyr missense_variant 0.12
katG 2154459 c.1653C>G synonymous_variant 0.1
katG 2154899 p.Ala405Ser missense_variant 0.13
katG 2154952 p.Asp387Gly missense_variant 0.18
PPE35 2169519 p.Gly365Asp missense_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518344 p.Met77Arg missense_variant 0.12
folC 2746161 p.Thr480Ala missense_variant 0.13
thyX 3067559 c.387C>A synonymous_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339346 p.Ala77Thr missense_variant 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474539 p.Ile178Asn missense_variant 0.15
fprA 3474960 c.954C>T synonymous_variant 0.17
Rv3236c 3612479 p.Pro213Leu missense_variant 0.22
fbiA 3641447 p.Thr302Met missense_variant 1.0
rpoA 3877553 p.Glu319Lys missense_variant 1.0
rpoA 3878601 c.-95delG upstream_gene_variant 0.43
rpoA 3878613 c.-113_-107delCAACCCA upstream_gene_variant 0.33
clpC1 4038396 c.2308dupG frameshift_variant 0.14
panD 4044471 c.-190T>C upstream_gene_variant 0.1
embC 4240897 c.1035C>G synonymous_variant 1.0
embC 4241588 p.Phe576Leu missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408271 c.-69A>C upstream_gene_variant 0.15