TB-Profiler result

Run: SRR14782610
Summary

Run ID: SRR14782610

Sample name:

Date: 03-04-2023 11:32:28

Number of reads: 3502247

Percentage reads mapped: 99.62

Strain: lineage4.8

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
lineage4.8 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
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 9647 c.2346C>G synonymous_variant 0.21
mshA 576613 c.1266A>C synonymous_variant 0.23
rpoC 764367 p.Gly333Ala missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.2
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305096 c.2166T>C synonymous_variant 0.99
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673553 p.Asp38Glu missense_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223204 c.-41_-40insATCTA upstream_gene_variant 0.95
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.21
pepQ 2860159 p.Ala87Gly missense_variant 0.23
Rv2752c 3064823 p.Val457Leu missense_variant 0.15
Rv2752c 3066321 c.-130C>G upstream_gene_variant 1.0
ald 3087818 p.Cys333Trp missense_variant 0.14
fbiD 3339734 p.Ala206Gly missense_variant 0.62
fbiD 3339746 p.Ala210Gly missense_variant 0.4
fbiD 3339751 p.Ala212Pro missense_variant 0.25
Rv3083 3448497 c.-7T>A upstream_gene_variant 0.67
fprA 3474213 p.Lys69Asn missense_variant 0.18
whiB7 3568428 c.252A>G synonymous_variant 0.57
rpoA 3878597 c.-90G>C upstream_gene_variant 0.43
rpoA 3878600 c.-93G>C upstream_gene_variant 0.5
rpoA 3878637 c.-130G>C upstream_gene_variant 1.0
rpoA 3878641 c.-134C>G upstream_gene_variant 0.82
embC 4240409 p.Pro183Ala missense_variant 0.44
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248324 p.Ala604Gly missense_variant 0.19
embB 4248328 c.1815G>C synonymous_variant 0.25
aftB 4267149 p.Glu563Gly missense_variant 1.0
aftB 4267155 p.Gln561Arg missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0