TB-Profiler result

Run: ERR2228793
Summary

Run ID: ERR2228793

Sample name:

Date: 31-03-2023 16:21:13

Number of reads: 1174563

Percentage reads mapped: 99.4

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 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 7276 c.-26T>A upstream_gene_variant 0.22
gyrA 7362 p.Glu21Gln missense_variant 1.0
rpoB 759743 c.-64G>A upstream_gene_variant 0.15
rpoC 766910 p.Ile1181Val missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777340 p.Lys381* stop_gained 0.26
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 1.0
rrs 1472538 n.693A>T non_coding_transcript_exon_variant 0.33
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474033 n.376A>T non_coding_transcript_exon_variant 0.33
rrl 1474062 n.405A>T non_coding_transcript_exon_variant 0.33
rrl 1475573 n.1916G>C non_coding_transcript_exon_variant 0.1
rrl 1476058 n.2401T>C non_coding_transcript_exon_variant 0.18
rrl 1476708 n.3051C>A non_coding_transcript_exon_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101718 p.Leu442Arg missense_variant 0.25
katG 2153912 p.Leu734Ile missense_variant 0.15
PPE35 2168227 p.Thr796Ser missense_variant 0.22
PPE35 2168607 p.Met669Lys missense_variant 0.5
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169063 p.Met517Lys missense_variant 0.25
PPE35 2169108 p.Asp502Val missense_variant 0.22
Rv1979c 2222522 p.Lys215* stop_gained 0.18
Rv1979c 2222573 p.Ser198Ala missense_variant 0.18
Rv1979c 2223066 c.99C>T synonymous_variant 0.13
Rv1979c 2223128 p.Lys13Glu missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ribD 2987038 p.Asp67Ala missense_variant 0.18
Rv2752c 3065011 p.Met394Thr missense_variant 0.12
fbiA 3641015 p.Asp158Ala missense_variant 0.27
rpoA 3878490 c.18C>G synonymous_variant 0.25
clpC1 4039701 p.Asp335Ala missense_variant 0.17
clpC1 4040524 p.Ser61Cys missense_variant 0.18
embC 4242393 p.Asp844Ala missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4268826 p.Val4Gly missense_variant 0.33
ethA 4327454 p.Val7Ala missense_variant 0.11
ethR 4327741 p.Phe65Ile missense_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