TB-Profiler result

Run: ERR4797086
Summary

Run ID: ERR4797086

Sample name:

Date: 01-04-2023 07:21:07

Number of reads: 4343046

Percentage reads mapped: 99.82

Strain: lineage4.4.1.2

Drug-resistance: Other

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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
lineage4.4 Euro-American S;T None 0.99
lineage4.4.1 Euro-American (S-type) S;T None 0.99
lineage4.4.1.2 Euro-American T1 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
gyrA 7570 p.Ala90Val missense_variant 1.0 ofloxacin, moxifloxacin, levofloxacin, fluoroquinolones, ciprofloxacin
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 490756 c.-27T>G upstream_gene_variant 0.18
mshA 576113 p.Arg256Gly missense_variant 0.3
mshA 576616 c.1269G>C synonymous_variant 0.29
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 1471793 n.-53G>T upstream_gene_variant 0.33
rrs 1471805 n.-41C>A upstream_gene_variant 0.38
rrl 1473619 n.-39G>A upstream_gene_variant 0.11
rrl 1473906 n.249G>A non_coding_transcript_exon_variant 0.25
rrl 1474191 n.534C>A non_coding_transcript_exon_variant 0.18
rrl 1475660 n.2003A>T non_coding_transcript_exon_variant 0.2
rrl 1475950 n.2293C>T non_coding_transcript_exon_variant 0.11
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.2
rrl 1476311 n.2654G>A non_coding_transcript_exon_variant 0.12
fabG1 1673553 p.Asp38Glu missense_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2167770 p.Ser948Ile missense_variant 1.0
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289805 c.-564C>T upstream_gene_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.3
pepQ 2860213 p.Pro69Leu missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568431 c.249C>G synonymous_variant 0.23
embC 4240409 p.Pro183Ala missense_variant 0.18
embC 4240479 p.Gly206Glu missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247024 p.Pro171Ala missense_variant 0.17
embB 4248324 p.Ala604Gly missense_variant 0.34
embB 4249012 c.2499G>A synonymous_variant 1.0
aftB 4268619 p.Val73Gly missense_variant 0.24
whiB6 4338595 c.-75delG upstream_gene_variant 1.0