TB-Profiler result

Run: SRR12830376
Summary

Run ID: SRR12830376

Sample name:

Date: 03-04-2023 06:58:37

Number of reads: 513070

Percentage reads mapped: 99.81

Strain: lineage4.3.3

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
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778170 p.Ala104Asp missense_variant 0.14
mmpL5 778299 p.Ala61Val missense_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305446 p.Gly839Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473905 n.248T>A non_coding_transcript_exon_variant 0.13
rrl 1474921 n.1264C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102308 c.735G>A synonymous_variant 1.0
ndh 2102754 p.Gln97Lys missense_variant 0.11
PPE35 2168871 p.Leu581Pro missense_variant 0.42
PPE35 2169047 c.1566C>A synonymous_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290217 c.-976T>C upstream_gene_variant 0.13
kasA 2518097 c.-18G>C upstream_gene_variant 0.12
kasA 2518919 p.Gly269Ser missense_variant 1.0
Rv2752c 3065055 c.1137T>C synonymous_variant 0.1
Rv2752c 3065332 p.Ile287Thr missense_variant 0.2
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449854 p.Met451Val missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640495 c.-48T>C upstream_gene_variant 0.11
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4268500 p.Arg113Cys missense_variant 0.12
aftB 4268835 c.2T>C start_lost 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0