TB-Profiler result

Run: SRR9971229
Summary

Run ID: SRR9971229

Sample name:

Date: 04-04-2023 23:18:07

Number of reads: 8789487

Percentage reads mapped: 98.76

Strain: lineage4.3.2.1

Drug-resistance: RR-TB

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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
rpoB 761108 p.Met434Ile missense_variant 1.0 rifampicin
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
mshA 576108 p.Ala254Gly missense_variant 0.28
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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472150 n.305T>G non_coding_transcript_exon_variant 0.67
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.67
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.67
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.4
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.25
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrl 1475715 n.2058G>C non_coding_transcript_exon_variant 0.17
rrl 1475751 n.2094C>A non_coding_transcript_exon_variant 0.18
rrl 1475756 n.2099T>C non_coding_transcript_exon_variant 0.18
rrl 1475760 n.2103C>A non_coding_transcript_exon_variant 0.17
rrl 1475762 n.2105G>T non_coding_transcript_exon_variant 0.17
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 0.98
fbiD 3339734 p.Ala206Gly missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3841612 c.-193_-192insC upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.21
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407582 c.621T>C synonymous_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0