TB-Profiler result

Run: SRR2101395
Summary

Run ID: SRR2101395

Sample name:

Date: 03-04-2023 23:41:35

Number of reads: 529562

Percentage reads mapped: 99.76

Strain: lineage4.3.2.1

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
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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 5520 p.Pro94Leu missense_variant 1.0
gyrB 6377 p.Val380Ile missense_variant 0.14
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 759784 c.-23A>C upstream_gene_variant 0.18
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781572 p.Gln5Lys missense_variant 0.12
fbiC 1303433 p.Asp168Val missense_variant 0.11
fbiC 1303792 p.Gln288* stop_gained 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
fabG1 1674123 p.Asp228Glu missense_variant 0.17
inhA 1674924 c.727_728dupTG frameshift_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156228 c.-118delC upstream_gene_variant 0.21
Rv1979c 2221909 p.Leu419Pro missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714639 p.Asp232Asn missense_variant 0.11
folC 2747325 p.Arg92Ser missense_variant 0.33
pepQ 2859851 p.Phe190Leu missense_variant 0.2
ribD 2987505 p.Leu223Met missense_variant 0.1
thyX 3068099 c.-154G>A upstream_gene_variant 0.13
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339126 c.9C>A synonymous_variant 0.12
Rv3083 3449299 p.Arg266Trp missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612693 c.424C>A synonymous_variant 0.14
Rv3236c 3612968 p.Gly50Val missense_variant 0.1
fbiB 3642473 p.Met313Ile missense_variant 0.12
alr 3840211 c.1209delC frameshift_variant 0.11
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244049 p.Asp273Tyr missense_variant 0.14
ethA 4326040 c.1434G>T synonymous_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0