TB-Profiler result

Run: ERR2229480
Summary

Run ID: ERR2229480

Sample name:

Date: 31-03-2023 17:14:27

Number of reads: 324586

Percentage reads mapped: 99.13

Strain: lineage4

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
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
gyrB 6798 p.Gly520Asp missense_variant 0.25
gyrA 7362 p.Glu21Gln missense_variant 1.0
rpoC 765148 c.1779C>T synonymous_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777157 c.1324C>A synonymous_variant 0.29
mmpL5 777164 c.1317C>T synonymous_variant 0.25
mmpL5 777173 c.1308C>T synonymous_variant 0.25
mmpL5 777176 p.Glu435Asp missense_variant 0.25
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
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673346 c.-94C>G upstream_gene_variant 0.17
fabG1 1673349 c.-91G>C upstream_gene_variant 0.17
fabG1 1673380 c.-60C>G upstream_gene_variant 0.43
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154610 p.Pro501Leu missense_variant 0.33
katG 2156094 c.18A>G synonymous_variant 0.13
PPE35 2167663 p.Ser984Gly missense_variant 0.17
PPE35 2167664 c.2949G>A synonymous_variant 0.17
PPE35 2168410 p.Thr735Ala missense_variant 0.14
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169273 p.Gly447Asp missense_variant 0.13
PPE35 2169287 c.1326T>C synonymous_variant 0.17
PPE35 2169293 c.1320T>C synonymous_variant 0.17
PPE35 2169587 c.1026G>A synonymous_variant 0.16
PPE35 2169717 p.Asn299Ile missense_variant 0.12
PPE35 2169725 c.888T>C synonymous_variant 0.12
PPE35 2169754 p.Phe287Ile missense_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.71
PPE35 2170053 p.Thr187Ser missense_variant 0.71
PPE35 2170147 p.Ser156Ala missense_variant 0.5
PPE35 2170189 p.Glu142Gln missense_variant 0.57
PPE35 2170190 c.423G>A synonymous_variant 0.57
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3065711 p.Gly161Arg missense_variant 0.17
fprA 3475071 p.Tyr355* stop_gained 0.5
alr 3841546 c.-126C>A upstream_gene_variant 0.17
clpC1 4039477 p.Met410Leu missense_variant 0.22
clpC1 4039481 p.Ala408Ser missense_variant 0.29
clpC1 4039484 p.Gly407Ala missense_variant 0.29
clpC1 4039498 p.Ile403Val missense_variant 0.22
clpC1 4039508 c.1197G>C synonymous_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4248083 p.Arg524Ser missense_variant 0.18
aftB 4267880 c.957C>T synonymous_variant 0.5
ethA 4327311 p.Ser55Pro missense_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0