TB-Profiler result

Run: ERR2229756

Summary

Run ID: ERR2229756

Sample name:

Date: 18-08-2022 10:42:43

Number of reads: 894803

Percentage reads mapped: 99.42

Strain: lineage4.8

Drug-resistance: Sensitive


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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 0.99
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
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 575292 c.-56C>A upstream_gene_variant 0.18
mshA 576108 p.Ala254Gly missense_variant 0.19
mshA 576111 p.Ala255Gly missense_variant 0.18
rpoB 759982 p.Ile59Asn missense_variant 0.2
rpoC 764104 c.735C>T synonymous_variant 0.12
rpoC 766202 p.Gly945Cys missense_variant 0.14
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471976 n.131C>A non_coding_transcript_exon_variant 0.12
rrl 1473609 n.-49G>A upstream_gene_variant 0.12
fabG1 1673380 c.-60C>G upstream_gene_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153972 p.Asp714Tyr missense_variant 0.15
ahpC 2726187 c.-6A>T upstream_gene_variant 0.15
pepQ 2860012 p.Asp136Ala missense_variant 0.12
thyX 3067340 c.606G>A synonymous_variant 0.25
thyA 3074467 p.Thr2Lys missense_variant 0.17
ald 3086989 p.Leu57Gln missense_variant 0.13
fbiA 3640880 p.Leu113Arg missense_variant 0.12
fbiB 3641638 p.Ala35Glu missense_variant 0.14
fbiB 3641813 p.Leu93Phe missense_variant 0.13
alr 3841041 p.Asp127Gly missense_variant 0.17
alr 3841612 c.-193_-192insC upstream_gene_variant 0.26
ddn 3987152 c.309A>G synonymous_variant 0.14
embC 4240998 p.Trp379Ser missense_variant 0.14
embC 4241198 p.Ile446Val missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245034 p.Arg601Pro missense_variant 0.18
embA 4245252 p.Thr674Ser missense_variant 0.2
embA 4245917 p.Gln895His missense_variant 0.12
embB 4246544 p.Thr11Pro missense_variant 0.4
embB 4246548 p.Pro12Gln missense_variant 0.37
embB 4246555 c.42G>C synonymous_variant 0.44
embB 4246556 p.Ala15Pro missense_variant 0.44
embB 4246563 p.Leu17Trp missense_variant 0.43
embB 4246567 c.54G>T synonymous_variant 0.4
embB 4247458 c.945C>T synonymous_variant 0.12
embB 4247462 p.Ser317Ala missense_variant 0.12
embB 4247470 c.957T>C synonymous_variant 0.13
embB 4247472 p.Phe320Tyr missense_variant 0.12
ubiA 4269116 p.Arg240Cys missense_variant 0.12
ubiA 4269467 p.Asn123His missense_variant 0.15
ubiA 4269471 c.363C>G synonymous_variant 0.17
ethR 4326889 c.-660C>A upstream_gene_variant 0.15
ethR 4326913 c.-636C>A upstream_gene_variant 0.12