TB-Profiler result

Run: SRR14801463
Summary

Run ID: SRR14801463

Sample name:

Date: 03-04-2023 11:48:58

Number of reads: 5794636

Percentage reads mapped: 99.62

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 Euro-American LAM;T;S;X;H None 1.0
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
gid 4408069 p.Trp45* stop_gained 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
gyrA 9432 p.Leu711Met missense_variant 0.98
mshA 576108 p.Ala254Gly missense_variant 0.17
mshA 576479 p.Pro378Ala missense_variant 0.14
ccsA 620358 c.468C>T synonymous_variant 0.99
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778092 p.Trp130* stop_gained 0.97
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406631 p.Ala237Val missense_variant 0.99
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.98
fabG1 1673553 p.Asp38Glu missense_variant 0.16
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086966 p.Asp49Glu missense_variant 0.99
fbiD 3339734 p.Ala206Gly missense_variant 0.42
fbiD 3339746 p.Ala210Gly missense_variant 0.45
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
rpoA 3878613 c.-106A>C upstream_gene_variant 0.2
rpoA 3878637 c.-130G>C upstream_gene_variant 0.32
rpoA 3878641 c.-134C>G upstream_gene_variant 0.37
embC 4240409 p.Pro183Ala missense_variant 0.16
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248324 p.Ala604Gly missense_variant 0.21
ethA 4327722 c.-249C>T upstream_gene_variant 0.99
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0