TB-Profiler result

Run: ERR025413
Summary

Run ID: ERR025413

Sample name:

Date: 31-03-2023 08:15:40

Number of reads: 744474

Percentage reads mapped: 99.31

Strain: lineage4.3.2;lineage4.1.2.1

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
lineage4.3 Euro-American (LAM) mainly-LAM None 0.07
lineage4.1 Euro-American T;X;H None 0.85
lineage4.3.2 Euro-American (LAM) LAM3 None 0.12
lineage4.1.2 Euro-American T;H None 0.83
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.71
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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 0.83
mshA 575679 p.Asn111Ser missense_variant 0.75
ccsA 620407 p.Pro173Ala missense_variant 0.27
rpoB 760115 c.309C>T synonymous_variant 0.84
rpoC 764365 c.996C>G synonymous_variant 0.38
rpoC 765150 p.Gly594Glu missense_variant 0.8
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779048 p.Val20Ala missense_variant 0.24
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1461019 c.-26C>A upstream_gene_variant 0.17
atpE 1461179 c.135G>T synonymous_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 0.2
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.32
rpsA 1834631 p.Gln364Lys missense_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102540 p.Ala168Gly missense_variant 0.2
PPE35 2169783 p.Thr277Lys missense_variant 0.42
PPE35 2169866 c.747G>C synonymous_variant 0.17
Rv1979c 2223057 c.108A>G synonymous_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 0.8
Rv2752c 3064552 p.Arg547Pro missense_variant 0.24
thyA 3074657 c.-186C>G upstream_gene_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474400 p.Tyr132Asp missense_variant 0.2
fbiB 3641955 p.Gly141Arg missense_variant 0.25
clpC1 4038857 c.1848C>A synonymous_variant 0.25
clpC1 4039932 p.Gly258Val missense_variant 0.36
embC 4241429 p.Phe523Val missense_variant 0.22
embC 4242476 p.Pro872Ala missense_variant 0.5
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.89
embA 4242883 c.-350C>G upstream_gene_variant 0.17
embA 4244375 c.1143C>G synonymous_variant 0.29
embA 4244844 p.Arg538Cys missense_variant 0.18
embA 4246218 p.His996Tyr missense_variant 0.13
aftB 4268812 p.Ser9Ala missense_variant 0.23
ubiA 4269864 c.-31C>G upstream_gene_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407644 p.Arg187Trp missense_variant 0.38