TB-Profiler result

Run: SRR23310835
Summary

Run ID: SRR23310835

Sample name:

Date: 13-03-2023 23:45:33

Number of reads: 1656429

Percentage reads mapped: 99.69

Strain: lineage4.8

Drug-resistance: Other

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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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.99
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
rpsL 781687 p.Lys43Arg missense_variant 1.0 streptomycin
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
mshA 576456 p.Val370Gly missense_variant 0.25
rpoC 764367 p.Gly333Ala missense_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 0.98
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.98
fabG1 1673553 p.Asp38Glu missense_variant 0.27
rpsA 1834339 c.798C>T synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.17
fbiD 3339734 p.Ala206Gly missense_variant 0.6
fbiD 3339751 p.Ala212Pro missense_variant 0.22
whiB7 3568428 c.252A>G synonymous_variant 0.38
rpoA 3878613 c.-106A>C upstream_gene_variant 0.29
rpoA 3878637 c.-130G>C upstream_gene_variant 0.5
rpoA 3878641 c.-134C>G upstream_gene_variant 0.58
clpC1 4039727 p.Asp326Asn missense_variant 1.0
embC 4240409 p.Pro183Ala missense_variant 0.27
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246529 p.Ser6Arg missense_variant 0.36
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0