TB-Profiler result

Run: ERR9030273
Summary

Run ID: ERR9030273

Sample name:

Date: 02-04-2023 09:24:50

Number of reads: 1625033

Percentage reads mapped: 99.95

Strain: lineage4

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
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 4248003 p.Gln497Arg 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
mshA 575690 p.Gly115Arg missense_variant 0.25
mshA 575916 c.570delC frameshift_variant 0.67
rpoC 766488 p.Pro1040Gln missense_variant 0.16
rpoC 766494 p.Gly1042Asp missense_variant 0.83
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471788 n.-58G>A upstream_gene_variant 0.99
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170198 p.Ala139Thr missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289037 p.Pro69Ser missense_variant 1.0
kasA 2518839 p.Ala242Gly missense_variant 0.2
eis 2714985 c.348G>T synonymous_variant 0.67
folC 2747024 p.Ala192Asp missense_variant 0.15
folC 2747028 c.570_571insAGATA frameshift_variant 0.15
pepQ 2859827 p.Ala198Thr missense_variant 0.18
fbiD 3338991 c.-127T>C upstream_gene_variant 0.13
Rv3083 3448445 c.-59G>A upstream_gene_variant 0.15
alr 3840764 c.657G>C synonymous_variant 1.0
embC 4240453 c.591C>T synonymous_variant 0.29
embC 4241029 p.Trp389Cys missense_variant 0.2
embA 4244083 p.Ala284Asp missense_variant 0.15
embB 4245851 c.-663G>A upstream_gene_variant 0.29
embB 4247971 c.1458C>T synonymous_variant 0.11
embB 4249299 p.Trp929Leu missense_variant 0.14
ubiA 4269391 p.Val148Ala missense_variant 1.0
ethA 4327155 c.307_318dupAAGGTGATCAGT conservative_inframe_insertion 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407869 c.316_333delACAGATCTGGGCGTGGCC conservative_inframe_deletion 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0