TB-Profiler result

Run: ERR2229327
Summary

Run ID: ERR2229327

Sample name:

Date: 31-03-2023 17:02:59

Number of reads: 1506796

Percentage reads mapped: 98.84

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 7362 p.Glu21Gln missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.35
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775650 p.Arg944Gln missense_variant 0.22
mmpL5 776455 p.Met676Leu missense_variant 0.12
mmpL5 777157 c.1324C>A synonymous_variant 0.15
mmpL5 777164 c.1317C>T synonymous_variant 0.15
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 1472555 n.710C>A non_coding_transcript_exon_variant 0.13
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673357 c.-83G>A upstream_gene_variant 0.15
fabG1 1673359 c.-81T>C upstream_gene_variant 0.15
fabG1 1673361 c.-79C>G upstream_gene_variant 0.16
fabG1 1673380 c.-60C>G upstream_gene_variant 0.36
fabG1 1673876 p.Gly146Val missense_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103242 c.-200A>T upstream_gene_variant 0.15
katG 2153970 p.Asp714Glu missense_variant 0.15
PPE35 2167708 p.Gly969Cys missense_variant 0.13
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169272 c.1341C>G synonymous_variant 0.14
PPE35 2169278 c.1335T>C synonymous_variant 0.15
PPE35 2169281 c.1332T>G synonymous_variant 0.16
PPE35 2170048 p.Leu189Val missense_variant 0.66
PPE35 2170053 p.Thr187Ser missense_variant 0.66
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860010 p.Ala137Ser missense_variant 0.12
pepQ 2860542 c.-124T>C upstream_gene_variant 0.12
Rv2752c 3064797 c.1395G>T synonymous_variant 0.14
Rv2752c 3065821 p.Val124Ala missense_variant 0.12
Rv3236c 3613123 c.-7T>G upstream_gene_variant 0.11
fbiB 3642303 c.771delA frameshift_variant 0.13
alr 3841546 c.-126C>A upstream_gene_variant 0.15
rpoA 3878567 c.-60C>G upstream_gene_variant 0.67
clpC1 4040049 p.Gly219Val missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.3
embB 4246548 p.Pro12Gln missense_variant 0.65
embB 4246555 c.42G>C synonymous_variant 0.7
embB 4246556 p.Ala15Pro missense_variant 0.7
embB 4246563 p.Leu17Trp missense_variant 0.38
embB 4246567 c.54G>T synonymous_variant 0.3
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0