TB-Profiler result

Run: ERR4820451
Summary

Run ID: ERR4820451

Sample name:

Date: 01-04-2023 16:41:24

Number of reads: 651532

Percentage reads mapped: 99.66

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 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
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 490720 c.-63T>A upstream_gene_variant 0.13
mshA 576108 p.Ala254Gly missense_variant 0.33
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778150 p.Gln111Lys missense_variant 0.11
mmpR5 779403 p.Glu138Asp missense_variant 0.12
mmpS5 779661 c.-756C>A upstream_gene_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800720 c.-89T>A upstream_gene_variant 0.2
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673162 c.-278T>C upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169911 c.702C>T synonymous_variant 1.0
Rv1979c 2222351 p.Thr272Ala missense_variant 0.17
Rv1979c 2223242 c.-78A>G upstream_gene_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518048 c.-67C>T upstream_gene_variant 0.18
ribD 2987007 p.Gly57Cys missense_variant 0.22
Rv2752c 3065061 p.Tyr377* stop_gained 0.13
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3083 3448500 c.-4A>G upstream_gene_variant 1.0
Rv3083 3448501 c.-3G>T upstream_gene_variant 1.0
whiB7 3568428 c.252A>G synonymous_variant 0.18
Rv3236c 3612047 p.Ala357Val missense_variant 1.0
fbiA 3640630 p.Ala30Thr missense_variant 1.0
alr 3841570 c.-150T>C upstream_gene_variant 0.11
rpoA 3878034 c.474A>G synonymous_variant 0.22
rpoA 3878171 c.336delG frameshift_variant 0.18
ddn 3986727 c.-117A>G upstream_gene_variant 0.12
ddn 3986922 p.Trp27Arg missense_variant 0.11
clpC1 4039245 p.Val487Ala missense_variant 0.11
clpC1 4039307 c.1397delA frameshift_variant 0.18
clpC1 4039939 p.Val256Met missense_variant 0.12
panD 4044034 c.247delG frameshift_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247129 p.Ile206Val missense_variant 0.12
embB 4247854 c.1341C>T synonymous_variant 0.17
embB 4248021 c.1510delG frameshift_variant 0.14
embB 4249209 p.Val899Ala missense_variant 0.1
ubiA 4269448 p.Val129Asp missense_variant 0.14
ethA 4326505 c.969C>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