TB-Profiler result

Run: ERR3148057
Summary

Run ID: ERR3148057

Sample name:

Date: 01-04-2023 00:42:44

Number of reads: 383036

Percentage reads mapped: 99.72

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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 761101 p.Gln432Pro missense_variant 1.0 rifampicin
rpsL 781687 p.Lys43Arg missense_variant 1.0 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
pncA 2288703 p.Val180Gly missense_variant 1.0 pyrazinamide
eis 2715344 c.-12C>T upstream_gene_variant 1.0 kanamycin
embB 4247429 p.Met306Val 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
fgd1 491484 c.702C>T synonymous_variant 0.11
mshA 575968 c.621C>A synonymous_variant 0.1
ccsA 619873 c.-18G>A upstream_gene_variant 0.14
rpoC 764817 p.Val483Gly missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777711 p.Gly257Val missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417089 p.Gly87Arg missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169350 c.1263C>T synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518674 p.Met187Lys missense_variant 0.17
ald 3087020 c.201C>T synonymous_variant 0.11
whiB7 3568437 c.243T>C synonymous_variant 0.12
fbiB 3640974 c.-561T>G upstream_gene_variant 1.0
fbiA 3641227 p.Ile229Val missense_variant 0.1
fbiA 3641471 p.Met310Thr missense_variant 0.12
embC 4241699 p.Met613Val missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244785 p.Arg518Leu missense_variant 0.2
whiB6 4338222 p.Glu100Asp missense_variant 0.12
whiB6 4338234 c.288A>G synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0