TB-Profiler result

Run: ERR1949978
Summary

Run ID: ERR1949978

Sample name:

Date: 31-03-2023 15:36:27

Number of reads: 1735758

Percentage reads mapped: 99.45

Strain: lineage4.8

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
fgd1 491489 p.Asp236Ala missense_variant 0.15
ccsA 620631 c.741T>C synonymous_variant 0.17
ccsA 620671 p.Trp261Gly missense_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 0.96
rrl 1473878 n.221A>T non_coding_transcript_exon_variant 0.43
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
PPE35 2169029 p.Asp528Glu missense_variant 0.25
PPE35 2169607 p.Asn336Tyr missense_variant 0.4
PPE35 2169628 p.Ile329Phe missense_variant 0.5
PPE35 2169652 p.Leu321Ile missense_variant 0.33
PPE35 2169855 p.Gly253Val missense_variant 0.2
Rv1979c 2222631 c.534T>A synonymous_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3064566 c.1626G>C synonymous_variant 0.42
Rv2752c 3065475 c.717C>T synonymous_variant 0.2
thyX 3067549 p.Thr133Pro missense_variant 0.18
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
whiB7 3568418 c.250_261delGGACGTCCGCGC conservative_inframe_deletion 0.17
Rv3236c 3612572 p.Val182Gly missense_variant 0.17
Rv3236c 3612905 p.Leu71Trp missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 0.98
embB 4249716 p.Asp1068Ala missense_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0