TB-Profiler result

Run: ERR2229052
Summary

Run ID: ERR2229052

Sample name:

Date: 31-03-2023 16:32:46

Number of reads: 972238

Percentage reads mapped: 99.44

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 7287 c.-15G>C upstream_gene_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.21
mshA 576123 p.Leu259Arg missense_variant 0.18
mshA 576290 p.Leu315Phe missense_variant 0.15
ccsA 620486 p.Arg199Leu missense_variant 0.17
ccsA 620578 p.Tyr230His missense_variant 0.11
rpoC 766367 p.Ala1000Ser missense_variant 0.14
rpoC 766799 p.Ala1144Thr missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776368 p.Leu705Met missense_variant 0.13
mmpL5 777590 c.891G>A synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1303795 p.Glu289* stop_gained 0.12
fbiC 1304156 p.Arg409Leu missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472393 n.548G>T non_coding_transcript_exon_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474126 n.469G>T non_coding_transcript_exon_variant 0.17
rrl 1476055 n.2398C>T non_coding_transcript_exon_variant 0.12
fabG1 1673346 c.-94C>G upstream_gene_variant 0.11
fabG1 1673349 c.-91G>C upstream_gene_variant 0.11
fabG1 1673380 c.-60C>G upstream_gene_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169278 c.1335T>C synonymous_variant 0.11
PPE35 2169281 c.1332T>G synonymous_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.31
PPE35 2170053 p.Thr187Ser missense_variant 0.33
PPE35 2170147 p.Ser156Ala missense_variant 0.13
PPE35 2170159 p.Ala152Ser missense_variant 0.19
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519140 c.1026G>C synonymous_variant 0.11
eis 2715510 c.-178G>T upstream_gene_variant 0.15
pepQ 2859646 p.Gln258Arg missense_variant 0.25
thyX 3067340 c.606G>A synonymous_variant 0.15
fprA 3475035 c.1029C>T synonymous_variant 0.12
fprA 3475167 c.1161C>A synonymous_variant 0.12
fbiB 3641803 p.Asp90Val missense_variant 0.12
fbiB 3642103 p.Thr190Asn missense_variant 0.11
rpoA 3877963 p.Arg182Pro missense_variant 0.14
embC 4241807 p.Pro649Ser missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243785 p.Leu185Met missense_variant 0.12
embB 4246548 p.Pro12Gln missense_variant 0.2
embB 4246555 c.42G>C synonymous_variant 0.25
embB 4246556 p.Ala15Pro missense_variant 0.25
embB 4249653 c.3141delC frameshift_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0