TB-Profiler result

Run: ERR1950028
Summary

Run ID: ERR1950028

Sample name:

Date: 31-03-2023 15:37:52

Number of reads: 163561

Percentage reads mapped: 99.65

Strain: lineage4

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
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
fgd1 490738 c.-45C>T upstream_gene_variant 0.33
mshA 575381 p.Leu12Val missense_variant 0.33
rpoB 761371 p.Ile522Asn missense_variant 0.33
rpoC 763897 p.Lys176Asn missense_variant 0.33
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302948 c.18T>G synonymous_variant 0.5
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304629 p.Phe567Ile missense_variant 0.5
Rv1258c 1406809 p.Ala178Thr missense_variant 0.4
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471684 n.-162A>T upstream_gene_variant 0.4
rrs 1472504 n.659A>T non_coding_transcript_exon_variant 0.22
rrl 1473995 n.338G>A non_coding_transcript_exon_variant 0.4
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168728 p.Gly629Arg missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289452 c.-211C>G upstream_gene_variant 0.25
pncA 2289561 c.-320T>G upstream_gene_variant 0.5
kasA 2518628 p.Ser172Ala missense_variant 0.5
Rv2752c 3065572 p.Glu207Gly missense_variant 0.5
thyA 3074548 c.-77T>G upstream_gene_variant 0.4
alr 3840230 c.1191T>A synonymous_variant 0.5
ddn 3987025 p.Val61Gly missense_variant 0.67
ddn 3987103 p.Met87Thr missense_variant 0.18
clpC1 4038314 c.2391T>G synonymous_variant 0.4
clpC1 4038876 p.Leu610Pro missense_variant 0.22
embC 4240204 c.342T>A synonymous_variant 0.67
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244184 p.Ser318Leu missense_variant 0.5
aftB 4267161 p.Val559Asp missense_variant 0.33
aftB 4267179 c.1657delT frameshift_variant 0.29
ubiA 4269820 p.Val5Ala missense_variant 0.29
ubiA 4269957 c.-124A>T upstream_gene_variant 0.29
ethR 4327000 c.-549G>A upstream_gene_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0