TB-Profiler result

Run: SRR4034200
Summary

Run ID: SRR4034200

Sample name:

Date: 04-04-2023 06:37:55

Number of reads: 1402803

Percentage reads mapped: 99.69

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
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 762147 p.Arg781Trp missense_variant 0.11
rpoB 762759 c.2954dupG frameshift_variant 0.17
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765375 c.2008delC frameshift_variant 0.12
rpoC 767104 c.3735C>A synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1460939 c.-106G>A upstream_gene_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472074 n.229G>T non_coding_transcript_exon_variant 0.15
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 0.9
rrl 1475008 n.1351C>T non_coding_transcript_exon_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168696 c.1917C>T synonymous_variant 0.16
Rv1979c 2222145 c.1020G>A synonymous_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726724 c.534delG frameshift_variant 0.11
folC 2746169 c.1429dupG frameshift_variant 0.11
Rv2752c 3065230 p.Gly321Val missense_variant 0.13
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449134 p.Gln211Lys missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3841612 c.-193_-192insC upstream_gene_variant 0.33
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039334 c.1371G>A synonymous_variant 0.15
embC 4240693 c.831T>C synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethR 4327813 c.268delC frameshift_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0