TB-Profiler result

Run: SRR14782530

Summary

Run ID: SRR14782530

Sample name:

Date: 03-04-2023 11:29:35

Number of reads: 8753831

Percentage reads mapped: 99.65

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 4408100 c.102delG frameshift_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 576616 c.1269G>C synonymous_variant 0.19
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 0.99
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.99
fabG1 1673553 p.Asp38Glu missense_variant 0.16
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 0.99
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.18
ald 3086987 p.Gln56His missense_variant 0.98
fbiD 3339734 p.Ala206Gly missense_variant 0.41
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fprA 3474119 p.Met38Thr missense_variant 1.0
whiB7 3568425 c.255T>G synonymous_variant 0.2
rpoA 3878597 c.-90G>C upstream_gene_variant 0.31
rpoA 3878641 c.-134C>G upstream_gene_variant 0.61
embC 4241555 p.Ser565Gly missense_variant 0.99
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246529 p.Ser6Arg missense_variant 0.19
embB 4248324 p.Ala604Gly missense_variant 0.21
embB 4248328 c.1815G>C synonymous_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0