TB-Profiler result

Run: ERR4830833
Summary

Run ID: ERR4830833

Sample name:

Date: 01-04-2023 20:30:39

Number of reads: 2173685

Percentage reads mapped: 99.65

Strain: lineage4.2

Drug-resistance: RR-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
lineage4.2 Euro-American H;T;LAM 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.His445Asp missense_variant 1.0 rifampicin
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 8475 p.Arg392Cys missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.47
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777066 p.Ile472Asn missense_variant 0.1
mmpL5 777178 p.Glu435Gln missense_variant 1.0
mmpL5 777356 c.1125G>A synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472738 n.893A>G non_coding_transcript_exon_variant 0.22
rrl 1476010 n.2353G>T non_coding_transcript_exon_variant 0.33
rrl 1476110 n.2453G>T non_coding_transcript_exon_variant 0.22
rrl 1476735 n.3078G>T non_coding_transcript_exon_variant 0.18
fabG1 1673380 c.-60C>G upstream_gene_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168796 p.Thr606Lys missense_variant 1.0
PPE35 2168919 p.Val565Asp missense_variant 0.18
PPE35 2169370 c.1242delA frameshift_variant 0.11
PPE35 2170048 p.Leu189Val missense_variant 0.23
PPE35 2170053 p.Thr187Ser missense_variant 0.21
Rv1979c 2221941 c.1224G>A synonymous_variant 0.18
Rv1979c 2222510 p.Ser219Thr missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518606 c.492G>C synonymous_variant 0.12
kasA 2518609 p.Met165Ile missense_variant 0.11
folC 2747158 c.441G>A synonymous_variant 1.0
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640402 c.-141C>G upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408160 p.Arg15Trp missense_variant 1.0