TB-Profiler result

Run: ERR2041693
Summary

Run ID: ERR2041693

Sample name:

Date: 27-03-2023 11:47:54

Number of reads: NA

Percentage reads mapped: NA

Strain: lineage4.1.2.1

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
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 761155 p.Ser450Leu missense_variant 1.0 rifampicin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
embB 4247730 p.Gly406Ala missense_variant 1.0 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
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 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
ccsA 620006 p.Val39Ala missense_variant 0.11
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761131 p.Gly442Val missense_variant 0.12
rpoC 765150 p.Gly594Glu missense_variant 0.97
rpoC 765561 p.Val731Ala missense_variant 0.1
rpoC 766487 p.Pro1040Ser missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777943 p.Pro180Thr missense_variant 0.1
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406943 c.397_398insGC frameshift_variant 0.12
Rv1258c 1406946 p.Ala132Gly missense_variant 0.12
Rv1258c 1406948 c.391_392delGC frameshift_variant 0.12
Rv1258c 1406990 c.351C>T synonymous_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473839 n.182G>A non_coding_transcript_exon_variant 0.14
rrl 1473894 n.237T>C non_coding_transcript_exon_variant 0.11
fabG1 1673380 c.-60C>G upstream_gene_variant 0.16
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ribD 2987418 p.Gly194Cys missense_variant 0.14
thyX 3067211 c.735G>A synonymous_variant 0.1
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640390 c.-153A>G upstream_gene_variant 1.0
fbiB 3642586 p.Met351Thr missense_variant 0.17
embC 4240674 p.Gly271Val missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408029 c.174C>G synonymous_variant 1.0