TB-Profiler result

Run: SRR4034456
Summary

Run ID: SRR4034456

Sample name:

Date: 04-04-2023 06:49:00

Number of reads: 1218816

Percentage reads mapped: 99.73

Strain: lineage4.3.2

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.2 Euro-American (LAM) LAM3 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
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
gyrB 5715 p.Lys159Met missense_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7954 p.Ala218Val missense_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 761918 p.Asp704Glu missense_variant 0.11
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 766052 p.Arg895Cys missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775673 p.Trp936* stop_gained 0.15
mmpL5 777547 p.Gly312Cys missense_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169445 c.1167delC frameshift_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714986 p.Ala116Val missense_variant 0.13
Rv2752c 3064589 p.Arg535Cys missense_variant 0.15
Rv2752c 3065057 c.1134delC frameshift_variant 0.1
Rv2752c 3065912 p.Leu94Phe missense_variant 0.11
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612965 c.151delG frameshift_variant 0.11
fbiA 3641452 p.Arg304Trp missense_variant 0.11
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.23
embB 4246548 p.Pro12Gln missense_variant 0.15
embB 4246555 c.42G>C synonymous_variant 0.3
embB 4246556 p.Ala15Pro missense_variant 0.3
aftB 4268514 p.Pro108His missense_variant 0.12
aftB 4269621 c.-785C>A upstream_gene_variant 0.12
whiB6 4338278 c.243delT frameshift_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0
gid 4408471 c.-269G>A upstream_gene_variant 0.12